SGD-Wiki - User contributions [en]

Commonly used strains

2015-10-06T12:49:26Z

Maria: /* JK9-3d */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]

==FY4==
'''Genotype:''' ''MAT''a

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

==XJ24-24a==
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Derived from, but not isogenic to, S288C

'''References:''' [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319

=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

=Sigma1278b=

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3_112/leu2-3_112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency.

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473

=D273-10B=
'''Genotype:''' ''MAT''α ''mal''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin ([http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256])

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52

=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).

Commonly used strains

2015-10-06T12:48:54Z

Maria: /* JK9-3d */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]

==FY4==
'''Genotype:''' ''MAT''a

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

==XJ24-24a==
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Derived from, but not isogenic to, S288C

'''References:''' [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319

=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

=Sigma1278b=

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3_112/leu2-3_112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency.

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473

=D273-10B=
'''Genotype:''' ''MAT''α ''mal''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin [http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256]

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52

=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).

Commonly used strains

2015-10-05T19:16:13Z

Maria: /* JK9-3d */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]

==FY4==
'''Genotype:''' ''MAT''a

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

==XJ24-24a==
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Derived from, but not isogenic to, S288C

'''References:''' [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319

=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

=Sigma1278b=

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3_112/leu2-3_112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency.

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473

=D273-10B=
'''Genotype:''' ''MAT''α ''mal''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin.

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52

=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).

Meetings

2015-09-08T09:28:58Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: July 15, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.imya11.com/site/ 11th International Meeting on Yeast Apoptosis] 
September 29 - October 3, 2015 
Porto, Portugal 
Abstract deadline: July 10, 2015 
Late Abstracts: September 15, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://www.ayeastgroup.org Yeast: Products and Discovery 2015 (YPD 15)] 
Ingkarni Wardli, Adelaide University, North Terrace, Adelaide 
December 2-4, 2015 
[http://wiki.yeastgenome.org/images/d/dc/YPD15announcement.pdf Preliminary notice] 

[http://yeastlipidconference.be/ 12th Yeast Lipid Conference] 
Ghent, Belgium 
May 20-22, 2015 

[http://events.embo.org/16-transcription-yeast/ Gene transcription in yeast: From chromatin to RNA and back] 
Sant Feliu de Guixols, Spain 
June 11-16, 2016 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

[http://icy2016.com/ ICY 2016: 14th International Congress on Yeasts] 
Awaji Yumebutai International Conference Center, Hyogo, Japan 
September 11-15, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-09-08T09:25:31Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: July 15, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.imya11.com/site/ 11th International Meeting on Yeast Apoptosis] 
September 29 - October 3, 2015 
Porto, Portugal 
Abstract deadline: July 10, 2015 
Late Abstracts: September 15, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://www.ayeastgroup.org Yeast: Products and Discovery 2015 (YPD 15)] 
Ingkarni Wardli, Adelaide University, North Terrace, Adelaide 
December 2-4, 2015 
[http://wiki.yeastgenome.org/images/d/dc/YPD15announcement.pdf Preliminary notice] 

[http://events.embo.org/16-transcription-yeast/ Gene transcription in yeast: From chromatin to RNA and back] 
Sant Feliu de Guixols, Spain 
June 11-16, 2016 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

[http://icy2016.com/ ICY 2016: 14th International Congress on Yeasts] 
Awaji Yumebutai International Conference Center, Hyogo, Japan 
September 11-15, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-09-08T09:19:46Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: July 15, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.imya11.com/site/ 11th International Meeting on Yeast Apoptosis] 
September 29 - October 3, 2015 
Porto, Portugal 
Abstract deadline: July 10, 2015 
Late Abstracts: September 15, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://www.ayeastgroup.org Yeast: Products and Discovery 2015 (YPD 15)] 
Ingkarni Wardli, Adelaide University, North Terrace, Adelaide 
December 2-4, 2015 
[http://wiki.yeastgenome.org/images/d/dc/YPD15announcement.pdf Preliminary notice] 

[http://events.embo.org/16-transcription-yeast/ Gene transcription in yeast: From chromatin to RNA and back] 
Sant Feliu de Guixols, Spain 
June 11-16, 2016 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-09-08T09:19:19Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: July 15, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.imya11.com/site/ 11th International Meeting on Yeast Apoptosis] 
September 29 - October 3, 2015 
Porto, Portugal 
Abstract deadline: July 10, 2015 
Late Abstracts: September 15, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://www.ayeastgroup.org Yeast: Products and Discovery 2015 (YPD 15)] 
Ingkarni Wardli, Adelaide University, North Terrace, Adelaide 
December 2-4, 2015 
[http://wiki.yeastgenome.org/images/d/dc/YPD15announcement.pdf Preliminary notice] 

[http://events.embo.org/16-transcription-yeast/ Gene transcription in yeast: From chromatin to RNA and back] 
Sant Feliu de Guixols, Spain
June 11-16, 2016

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

SGD Quarterly Newsletter, Summer 2015

2015-08-26T23:55:58Z

Maria: /* Upcoming meetings */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the ''Getting More Out of SGD'' workshop, we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new sequence Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Mike Cherry]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|-
|}


===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback regarding how we can improve SGD to be entered in a daily raffle for SGD prizes!

===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 50%; height: 100px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|'''Poster Title'''
| style="text-align:center;"|'''Presenter'''
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|Edith Wong
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|Giltae Song
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|Stacia Engel
|- style="vertical-align:middle;"
|-
|}

 

==Upcoming meetings==
# Cell Biology of Yeasts Meeting at Cold Spring Harbor Labs. SGD staff will be at the [https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts Meeting] to showcase what's new at SGD. Come find us at the exhibit table!
# At the end of August, Prof. Mike Cherry and Rama Balakrishnan (Senior Biocuration Scientist) will be attending the [http://wiki.geneontology.org/index.php/2015_Washington_DC_GOC_Meeting_Agenda GO Consortium meeting] in Washington DC. In addition, they will both attend the first [http://wiki.geneontology.org/index.php/2015_Washington_DC_GOC_Symposium_Agenda GO Consortium Symposium day], on September 1, which will be open to the research community and functional analysis tool providers.

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can substitute for each other, they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff, and is incorporated into SGD with their generous permission. Curation of this type of data will continue at SGD going forward.

As a starting point, we collected a very straightforward set of data:
* the yeast and human genes involved in a functional complementation relationship, with their respective identifiers;
* the direction of complementation (human gene complements yeast mutation, or vice versa);
* the source of curation (SGD or P-POD);
* the PubMed ID of the reference;
* an optional free-text note adding more details.

In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two places:
# new templates in SGD's [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] data warehouse;
# SGD's [http://www.yeastgenome.org/download-data/curation Download] site.

Please take a look, let us know what you think, and point us to any published data that might be missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC]-approved symbols) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions [https://www.youtube.com/watch?v=vT_ihoyVwNY Overview] and [https://www.youtube.com/watch?v=evUSAtIwTFI Network]
* [https://www.youtube.com/watch?v=22j-KWR-1qA Genome Snapshot]
* [https://www.youtube.com/watch?v=Ai4tOv20_YY Yeast-Human Functional Complementation Data]
* [https://www.youtube.com/watch?v=y5ASL7rBulA Reserving a Gene Name]
* [https://www.youtube.com/watch?v=RVtSYSYnDak Sequence pages]
* [https://www.youtube.com/watch?v=oKlvNqpmWfM Protein pages]
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight (Blog posts)==
In case you missed them, these were some of the most popular Research Spotlight posts on our home page recently:

[http://www.yeastgenome.org/private-nurses-help-birth-ribosomal-proteins '''Private Nurses Help Birth Ribosomal Proteins''']. [http://www.yeastgenome.org/reference/S000180748/overview Pausch and colleagues] show that some ribosomal proteins are such potential troublemakers that they need individual chaperones to keep them swaddled and safe until they settle into the mature ribosome.

[http://www.yeastgenome.org/wheres-that-protein '''Where's That Protein?''']. We can now pinpoint the locations of more than 4,000 yeast proteins, thanks to nine BILLION measurements made at the University of Toronto, published by [http://www.yeastgenome.org/reference/S000180516/overview Chong ''et al.''] and [http://www.yeastgenome.org/reference/S000180515/overview Koh ''et al.''].

[http://www.yeastgenome.org/yeast-are-people-too '''Yeast are People Too''']. A new study by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo ''et al.''] in the Marcotte lab at the University of Texas at Austin shows that when you look under the hood, yeast and human cells not only look similar but even have hundreds of interchangeable parts.

==What did we do over the summer?==

# Robert Nash, a Senior Biocuration Scientist at SGD, presented a tutorial at the [http://meetings.cshl.edu/courses.aspx?course=c-yeas&year=15 YEAST GENETICS & GENOMICS] course at [http://www.cshl.edu CSHL], on what types of data are available at SGD, and how to use YeastMine. [http://wiki.yeastgenome.org/index.php/SGD_Poster_Archive Slides from his presentation] are available at SGD.
# Edith Wong, a Senior Biocuration Scientist at SGD, gave a presentation on "The Power of SGD" at the Fungal Genetics Meeting at Asilomar Conference Center; Pacific Grove, CA and attended the American Society of Microbiology (ASM) meeting
# Rama Balakrishnan, Senior Biocuration Scientist at SGD was a member of the Trainee BootCamp at the Fungal Genetics Meeting at Asilomar Conference Center; Pacific Grove, CA. She also gave [http://wiki.yeastgenome.org/index.php/SGD_Poster_Archive presentations] at the Eighth International Biocuration Conference at Beijing.
# Stacia Engel, Senior Biocuration Scientist and Curation Group Leader at SGD, gave a presentation on "Homology Curation at SGD: budding yeast as a model for eukaryotic biology" at the Eighth International Biocuration Conference at Beijing. [http://wiki.yeastgenome.org/index.php/SGD_Poster_Archive Slides from her presentation] are available at SGD.
# Travis Sheppard, a Senior Software Developer at SGD, attended the React.js Europe conference at Paris to learn more about techniques, best practices, and emerging technologies related to the use of React.js in web development and user interfaces. He also attended the Eyeo Festival in Minneapolis to gain insight into the processes used by designers for data visualization.
# Kalpana Karra, a Senior Software Developer at SGD, attended the InterMine All Hands meeting at Toronto to collaborate and learn about the new features in the InterMine software

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:34:52Z

Maria: /* Research Spotlight */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==
In case you missed them, these were some of the most popular Research Spotlight posts on our home page recently:

[http://www.yeastgenome.org/ancient-hybridization-causes-revision-of-yeasts-calendar '''Ancient Hybridization Causes Revision of Yeast's Calendar''']. The whole-genome duplication of ''Saccharomyces cerevisiae'' has been taken as gospel. But new work from [http://www.yeastgenome.org/reference/S000181143/overview Marcet-Houben and Gabaldón] suggests that budding yeast's history is more complicated than we thought.

[http://www.yeastgenome.org/private-nurses-help-birth-ribosomal-proteins '''Private Nurses Help Birth Ribosomal Proteins''']. [http://www.yeastgenome.org/reference/S000180748/overview Pausch and colleagues] show that some ribosomal proteins are such potential troublemakers that they need individual chaperones to keep them swaddled and safe until they settle into the mature ribosome.

[http://www.yeastgenome.org/wheres-that-protein '''Where's That Protein?''']. We can now pinpoint the locations of more than 4,000 yeast proteins, thanks to nine BILLION measurements made at the University of Toronto, published by [http://www.yeastgenome.org/reference/S000180516/overview Chong ''et al.''] and [http://www.yeastgenome.org/reference/S000180515/overview Koh ''et al.''].

[http://www.yeastgenome.org/yeast-are-people-too '''Yeast are People Too''']. A new study by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo ''et al.''] in the Marcotte lab shows that when you look under the hood, yeast and human cells not only look similar but even have hundreds of interchangeable parts.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:21:24Z

Maria: /* Research Spotlight */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==
In case you missed them, these were some of the most popular Research Spotlight posts on our home page recently:

[http://www.yeastgenome.org/ancient-hybridization-causes-revision-of-yeasts-calendar '''Ancient Hybridization Causes Revision of Yeast's Calendar''']. The whole-genome duplication of ''Saccharomyces cerevisiae'' has been taken as gospel. But new work from [http://www.yeastgenome.org/reference/S000181143/overview Marcet-Houben and Gabaldón] suggests that budding yeast's history is more complicated than we thought.

[http://www.yeastgenome.org/private-nurses-help-birth-ribosomal-proteins '''Private Nurses Help Birth Ribosomal Proteins''']. [http://www.yeastgenome.org/reference/S000180748/overview Pausch and colleagues] show that some ribosomal proteins are such potential troublemakers that they need individual chaperones to keep them swaddled and safe until they settle into the mature ribosome.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:20:44Z

Maria: /* Research Spotlight */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==
In case you missed them, these are some of the most popular Research Spotlight posts on our home page recently:

[http://www.yeastgenome.org/ancient-hybridization-causes-revision-of-yeasts-calendar Ancient Hybridization Causes Revision of Yeast's Calendar]. The whole-genome duplication of ''Saccharomyces cerevisiae'' has been taken as gospel. But new work from [http://www.yeastgenome.org/reference/S000181143/overview Marcet-Houben and Gabaldón] suggests that budding yeast's history is more complicated than we thought.

[http://www.yeastgenome.org/private-nurses-help-birth-ribosomal-proteins Private Nurses Help Birth Ribosomal Proteins]. [http://www.yeastgenome.org/reference/S000180748/overview Pausch and colleagues] show that some ribosomal proteins are such potential troublemakers that they need individual chaperones to keep them swaddled and safe until they settle into the mature ribosome.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:16:27Z

Maria: /* Research Spotlight */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==
In case you missed them, some of the most popular Research Spotlight posts on our home page have been:

'''Ancient Hybridization Causes Revision of Yeast's Calendar.''' The whole-genome duplication of ''Saccharomyces cerevisiae'' has been taken as gospel. But new work from Marcet-Houben and Gabaldón suggests that budding yeast's history is more complicated than we thought.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:12:53Z

Maria: /* Exhibit Table */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB. Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:11:25Z

Maria: /* SGD’s 60-second Help Videos */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==Research Spotlight==

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:08:54Z

Maria: /* Most "Liked" blog posts at SGD */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:08:08Z

Maria: /* Posters */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD staff will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Most "Liked" blog posts at SGD===
SGD curators highlight some of the current yeast research in a simple blog post. Check out the most Liked blog posts (need to elaborate on this)!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

SGD Quarterly Newsletter, Summer 2015

2015-08-25T19:07:52Z

Maria: /* Posters */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==SGD at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|300px]]

SGD staff will be hosting a workshop, posters, and an exhibit table at the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015. SGD will showcase the items mentioned below and more! At the workshop, ''Getting More Out of SGD'' we will be discussing our curation efforts in capturing yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine and more. Bring your questions and comments - we love feedback!

===Workshop: ''Getting More out of SGD''===
 '''Date:''' Sunday, September 6th, 4PM 
'''Room:''' 
'''Featured Topics''': Yeast-human functional complementation data, the new Variant Viewer, new data in YeastMine 

Find these SGD staff members, as well as those presenting [[#Posters|posters]], at the Workshop and the Exhibit table:
{| border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|[[File:mike-cherry.png|center|100px|thumb|Dr. Mike Cherry workshop speaker]]
| style="text-align:center;"|[[File:Maria-staff_pic.jpg|center|100px|thumb|Maria Costanzo workshop speaker]]
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel workshop speaker]]
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong workshop speaker]]
|-
|}


===Posters===
In addition to the Workshop, SGD curators will present three posters - please stop by and chat with us!
{| style="width: 60%; height: 200px;" border="1"
|- style="vertical-align:middle;"
| style="text-align:center;"|Poster Title
| style="text-align:center;"|Presenter
|- style="vertical-align:middle;"
| style="text-align:center;"|Integrating genome-wide datasets into the Saccharomyces Genome Database
| style="text-align:center;"|[[File:Edith-staff_pic.png|center|100px|thumb|Edith Wong]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Inferring Genome Variation Patterns in Saccharomyces cerevisiae using the Eukaryote Pan-Genome Toolset
| style="text-align:center;"|[[File:giltae-song.png|center|100px|thumb|Giltae Song]]
|- style="vertical-align:middle;"
| style="text-align:center;"|Homology curation at SGD: budding yeast as a model for eukaryotic biology
| style="text-align:center;"|[[File:Stacia-staff_pic.png|center|100px|thumb|Stacia Engel]]
|- style="vertical-align:middle;"
|-
|}

===Exhibit Table===
SGD will also have an exhibit table at the ICYGMB Come by to take a spin on our site, learn about various features of the database, and provide us with feedback as to what we can do to improve SGD and receive a prize! Look for us wearing our SuperBud fleece jackets, and feel free to flag any of us down!

==Yeast-Human Functional Complementation Data Now in SGD==
Yeast and humans diverged about a billion years ago. So if there’s still enough functional conservation between a pair of similar yeast and human genes that they can be substituted for each other, we know they must be critically important for life. An added bonus is that if a human protein works in yeast, all of the awesome power of yeast genetics and molecular biology can be used to study it.

To make it easier for researchers to identify these “swappable” yeast and human genes, we’ve started collecting functional complementation data in SGD. The data are all curated from the published literature, via two sources. One set of papers was curated at SGD, including the recent systematic study of functional complementation by [http://www.yeastgenome.org/reference/S000180316/overview Kachroo and colleagues]. Another set was curated by Princeton Protein Orthology Database ([http://ppod.princeton.edu/ P-POD]) staff and is incorporated into SGD with their generous permission.

As a starting point, we’ve collected a relatively simple set of data: the yeast and human genes involved in a functional complementation relationship, with their respective identifiers; the direction of complementation (human gene complements yeast mutation, or vice versa); the source of curation (SGD or P-POD); the PubMed ID of the reference; and an optional free-text note adding more details. In the future we’ll incorporate more information, such as the disease involvement of the human protein and the sequence differences found in disease-associated alleles that fail to complement the yeast mutation.

You can access these data in two ways: using two new templates in [http://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine] our data warehouse; or via our [http://www.yeastgenome.org/download-data Download] page. Please take a look, let us know what you think, and point us to any published data that’s missing. We always appreciate your feedback!

===Most "Liked" blog posts at SGD===
SGD curators highlight some of the current yeast research in a simple blog post. Check out the most Liked blog posts (need to elaborate on this)!

===Accessing Functional Complementation Data===
YeastMine is a versatile tool that lets you customize searches and create and manipulate lists of search results. To help you get started with YeastMine we've created a series of short [http://www.yeastgenome.org/help/video-tutorials/yeastmine video tutorials] explaining its features.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Complements&scope=all Gene --> Functional Complementation template]
This template lets you query with a yeast gene or list of genes (either your own custom list, or a pre-made gene list) and retrieve the human gene(s) involved in cross-species complementation along with all of the data listed above.
[http://yeastmine.yeastgenome.org/yeastmine/template.do?name=HumaGene_YeastGene_Complement&scope=all Human Gene --> Functional Complementation template]
This template takes either human gene names ([http://www.genenames.org/ HGNC -approved symbols]) or [http://www.ncbi.nlm.nih.gov/gene Entrez Gene] IDs for human genes and returns the yeast gene(s) involved in cross-species complementation, along with the data listed above. You can run the query using a single human gene as input, or create a custom list of human genes in YeastMine for the query. We've created two new pre-made lists of human genes that can also be used with this template. The list "Human genes complementing or complemented by yeast genes" includes only human genes that are currently included in the functional complementation data, while the list "Human genes with yeast homologs" includes all human genes that have a yeast homolog as predicted by any of several methods.
<h3>Downloading Functional Complementation Data</h3>
If you'd prefer to have all the data in one file, simply visit our [http://www.yeastgenome.org/download-data/curation Curated Data download page] and download the file "functional_complementation.tab".

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out the latest new videos available for the following topics:
* Interactions Overview and Network
* Genome Snapshot
* Yeast-Human Functional Complementation Data
* Reserving a Gene Name
* Working with Lists in YeastMine
All videos are accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page and through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

==What else did we do over the summer?==
===Yeast Genetics and Genomics Course at Cold Spring Harbor Labs===
Robert Nash, a senior biocuration scientist at SGD, presented a tutorial at the YEAST GENETICS & GENOMICS course at CSHL, on what data is available at SGD, how to use YeastMine. Slides from his presentation are available at SGD.
===Some meeting at Paris===
Travis, a software engineer at SGD, attended the blah meeting at Paris to learn more about blah blah.

==Recent Publications by SGD staff==
#Skrzypek MS, Nash RS (2015) Biocuration at the Saccharomyces Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. Epub 2015 Jul 3. [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of Saccharomyces cerevisiae. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']

Meetings

2015-06-30T15:31:27Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[https://events.bizzabo.com/SynGenome2015 4th Annual Sc2.0 and Synthetic Genomes Conference] 
New York, NY 
July 16-17, 2015 
Earlybird registration deadline: May 30 
Abstract deadline: June 19 

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: May 15, 2015

[http://cmb.gu.se/english/research/microbiology/adler-symposium Adler Symposium on Yeast Biology] 
University of Gothenburg, Gothenburg, Sweden 
August 28, 2015 
Registration Deadline: August 20, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: July 15, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-06-24T13:59:39Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[https://events.bizzabo.com/SynGenome2015 4th Annual Sc2.0 and Synthetic Genomes Conference] 
New York, NY 
July 16-17, 2015 
Earlybird registration deadline: May 30 
Abstract deadline: June 19 

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: May 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: May 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://wnoz.up.wroc.pl/bria/ Biotechnology - Research and Industrial Applications (BRIA-2015)] 
Wroclaw, Poland 
September 17-18, 2015 
Registration deadline: June 15, 2015 
Abstract submission deadline: May 30, 2015 

[http://groups.molbiosci.northwestern.edu/lackner/MYM.html 2015 Midwest Yeast Meeting] 
Northwestern University, Evanston, IL 
September 26-27, 2015 
Abstract and registration deadline: September 11, 2015 

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[https://meetings.cshl.edu/meetings.aspx?meet=YEAST&year=15 Cell Biology of Yeasts] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
November 3-7, 2015 
Abstract deadline: August 21, 2015 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-04-21T15:00:23Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://biocuration2015.big.ac.cn Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[https://events.bizzabo.com/SynGenome2015 4th Annual Sc2.0 and Synthetic Genomes Conference] 
New York, NY 
July 16-17, 2015 
Earlybird registration deadline: May 30 
Abstract deadline: June 1 

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: May 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: May 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-03-31T00:13:37Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.Hendrix.edu/SERYM SERYM 2015: 22nd Annual Southeastern Regional Yeast Meeting] 
William J. Clinton Presidential Center 
Little Rock, AR 
March 17-22, 2015

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://www.byg2015.ls.manchester.ac.uk The British Yeast Group (BYG) Meeting 2015] 
University of Manchester, Manchester, UK 
March 25-27, 2015 
Registration deadline: January 16, 2015

[http://biocuration2015.big.ac.cn Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[https://events.bizzabo.com/SynGenome2015 4th Annual Sc2.0 and Synthetic Genomes Conference] 
New York, NY 
July 16-17, 2015 
Earlybird registration deadline: May 30 
Abstract deadline: June 1 

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: April 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: May 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-03-10T16:19:09Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.Hendrix.edu/SERYM SERYM 2015: 22nd Annual Southeastern Regional Yeast Meeting] 
William J. Clinton Presidential Center 
Little Rock, AR 
March 17-22, 2015

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://www.byg2015.ls.manchester.ac.uk The British Yeast Group (BYG) Meeting 2015] 
University of Manchester, Manchester, UK 
March 25-27, 2015 
Registration deadline: January 16, 2015

[http://biocuration2015.big.ac.cn Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: April 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: May 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://www.fcw2015.org/overview Fungal Cell Wall 2015] 
Paris, France 
October 26-28, 2015 

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
Lisbon, Portugal 
July 11-14, 2016 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

SGD Newsletter Archives

2015-02-27T03:25:26Z

Maria:

[[Category:Newsletter]]
SGD publishes four newsletters each year. This page contains links to the SGD Newsletters that have been released, listed in chronological order. Click on a date to see the newsletter published for that quarter.

{| width="50%" border="1"
|- bgcolor="E6E6FA"
| '''2015'''
| [[SGD_Quarterly_Newsletter,_Spring_2015| 2015-2-26]]
|
|
|
|-
| '''2014'''
| [[SGD_Quarterly_Newsletter,_Spring_2014| 2014-4-17]]
| [[SGD_Quarterly_Newsletter,_Summer_2014| 2014-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2014|2014-10-15]]
|
|- bgcolor="E6E6FA"
| '''2013'''
| [[SGD_Quarterly_Newsletter,_Summer_2013| 2013-6-10]]
| [[SGD_Quarterly_Newsletter,_Winter_2013| 2013-12-16]]
|
|
|-
| '''2012'''
| [[SGD_Quarterly_Newsletter,_Winter_2012| 2012-1-27]]
| [[SGD_Quarterly_Newsletter,_Spring_2012| 2012-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2012| 2012-8-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2012| 2012-12-13]]
|- bgcolor="E6E6FA"
| '''2011'''
| [[SGD_Quarterly_Newsletter,_Winter_2011| 2011-2-18]]
| [[SGD_Quarterly_Newsletter,_Spring_2011| 2011-5-5]]
| [[SGD_Quarterly_Newsletter,_Summer_2011| 2011-8-11]]
|
|-
| '''2010'''
| [[SGD_Quarterly_Newsletter,_Winter_2010| 2010-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2010| 2010-4-29]]
| [[SGD_Quarterly_Newsletter,_Summer_2010| 2010-7-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2010| 2010-11-1]]
|- bgcolor="E6E6FA"
| '''2009'''
| [[SGD_Quarterly_Newsletter,_Winter_2009| 2009-2-3]]
| [[SGD_Quarterly_Newsletter,_Spring_2009| 2009-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2009| 2009-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2009| 2009-11-6]]
|-
| '''2008'''
| [[SGD_Quarterly_Newsletter,_Winter_2008| 2008-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2008| 2008-4-30]]
| [[SGD_Quarterly_Newsletter,_Summer_2008| 2008-7-31]]
| [[SGD_Quarterly_Newsletter,_Fall_2008| 2008-11-3]]
|- bgcolor="E6E6FA"
| '''2007'''
| [[SGD_Quarterly_Newsletter,_Winter_2007| 2007-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2007| 2007-5-7]]
| [[SGD_Quarterly_Newsletter,_Summer_2007| 2007-7-30]]
| [[SGD_Quarterly_Newsletter,_Fall_2007| 2007-11-8]]
|-
| '''2006'''
| [[SGD_Quarterly_Newsletter,_Winter_2006| 2006-2-2]]
| [[SGD_Quarterly_Newsletter,_Spring_2006| 2006-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2006| 2006-7-20]]
| [[SGD_Quarterly_Newsletter,_Fall_2006| 2006-11-1]]
|- bgcolor="E6E6FA"
| '''2005'''
| [[SGD_Quarterly_Newsletter,_Winter_2005| 2005-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2005| 2005-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2005| 2005-7-29]]
| [[SGD_Quarterly_Newsletter,_Fall_2005| 2005-10-24]]
|-
| '''2004'''
| [[SGD_Quarterly_Newsletter,_Winter_2004| 2004-1-30]]
| [[SGD_Quarterly_Newsletter,_Spring_2004| 2004-4-26]]
| [[SGD_Quarterly_Newsletter,_Summer_2004| 2004-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2004| 2004-11-18]]
|- bgcolor="E6E6FA"
| '''2003'''
| [[SGD_Quarterly_Newsletter,_Winter_2003| 2003-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2003| 2003-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2003| 2003-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2003| 2003-10-31]]
|-
|}

SGD Newsletter Archives

2015-02-27T03:25:04Z

Maria:

[[Category:Newsletter]]
SGD publishes four newsletters each year. This page contains links to the SGD Newsletters that have been released, listed in chronological order. Click on a date to see the newsletter published for that quarter.

http://wiki.yeastgenome.org/index.php/SGD_Quarterly_Newsletter,_Spring_2015

{| width="50%" border="1"
|- bgcolor="E6E6FA"
| '''2015'''
| [[SGD_Quarterly_Newsletter,_Spring_2015| 2015-2-26]]
|
|
|
|-
| '''2014'''
| [[SGD_Quarterly_Newsletter,_Spring_2014| 2014-4-17]]
| [[SGD_Quarterly_Newsletter,_Summer_2014| 2014-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2014|2014-10-15]]
|
|- bgcolor="E6E6FA"
| '''2013'''
| [[SGD_Quarterly_Newsletter,_Summer_2013| 2013-6-10]]
| [[SGD_Quarterly_Newsletter,_Winter_2013| 2013-12-16]]
|
|
|-
| '''2012'''
| [[SGD_Quarterly_Newsletter,_Winter_2012| 2012-1-27]]
| [[SGD_Quarterly_Newsletter,_Spring_2012| 2012-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2012| 2012-8-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2012| 2012-12-13]]
|- bgcolor="E6E6FA"
| '''2011'''
| [[SGD_Quarterly_Newsletter,_Winter_2011| 2011-2-18]]
| [[SGD_Quarterly_Newsletter,_Spring_2011| 2011-5-5]]
| [[SGD_Quarterly_Newsletter,_Summer_2011| 2011-8-11]]
|
|-
| '''2010'''
| [[SGD_Quarterly_Newsletter,_Winter_2010| 2010-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2010| 2010-4-29]]
| [[SGD_Quarterly_Newsletter,_Summer_2010| 2010-7-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2010| 2010-11-1]]
|- bgcolor="E6E6FA"
| '''2009'''
| [[SGD_Quarterly_Newsletter,_Winter_2009| 2009-2-3]]
| [[SGD_Quarterly_Newsletter,_Spring_2009| 2009-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2009| 2009-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2009| 2009-11-6]]
|-
| '''2008'''
| [[SGD_Quarterly_Newsletter,_Winter_2008| 2008-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2008| 2008-4-30]]
| [[SGD_Quarterly_Newsletter,_Summer_2008| 2008-7-31]]
| [[SGD_Quarterly_Newsletter,_Fall_2008| 2008-11-3]]
|- bgcolor="E6E6FA"
| '''2007'''
| [[SGD_Quarterly_Newsletter,_Winter_2007| 2007-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2007| 2007-5-7]]
| [[SGD_Quarterly_Newsletter,_Summer_2007| 2007-7-30]]
| [[SGD_Quarterly_Newsletter,_Fall_2007| 2007-11-8]]
|-
| '''2006'''
| [[SGD_Quarterly_Newsletter,_Winter_2006| 2006-2-2]]
| [[SGD_Quarterly_Newsletter,_Spring_2006| 2006-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2006| 2006-7-20]]
| [[SGD_Quarterly_Newsletter,_Fall_2006| 2006-11-1]]
|- bgcolor="E6E6FA"
| '''2005'''
| [[SGD_Quarterly_Newsletter,_Winter_2005| 2005-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2005| 2005-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2005| 2005-7-29]]
| [[SGD_Quarterly_Newsletter,_Fall_2005| 2005-10-24]]
|-
| '''2004'''
| [[SGD_Quarterly_Newsletter,_Winter_2004| 2004-1-30]]
| [[SGD_Quarterly_Newsletter,_Spring_2004| 2004-4-26]]
| [[SGD_Quarterly_Newsletter,_Summer_2004| 2004-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2004| 2004-11-18]]
|- bgcolor="E6E6FA"
| '''2003'''
| [[SGD_Quarterly_Newsletter,_Winter_2003| 2003-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2003| 2003-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2003| 2003-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2003| 2003-10-31]]
|-
|}

SGD Newsletter Archives

2015-02-27T03:24:42Z

Maria:

[[Category:Newsletter]]
SGD publishes four newsletters each year. This page contains links to the SGD Newsletters that have been released, listed in chronological order. Click on a date to see the newsletter published for that quarter.

http://wiki.yeastgenome.org/index.php/SGD_Quarterly_Newsletter,_Spring_2015

{| width="50%" border="1"
|- bgcolor="E6E6FA"
| '''2015'''
| [[SGD_Quarterly_Newsletter,_Spring_2015| 2015-2-26]]
|
|
| |-
| '''2014'''
| [[SGD_Quarterly_Newsletter,_Spring_2014| 2014-4-17]]
| [[SGD_Quarterly_Newsletter,_Summer_2014| 2014-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2014|2014-10-15]]
|
|- bgcolor="E6E6FA"
| '''2013'''
| [[SGD_Quarterly_Newsletter,_Summer_2013| 2013-6-10]]
| [[SGD_Quarterly_Newsletter,_Winter_2013| 2013-12-16]]
|
|
|-
| '''2012'''
| [[SGD_Quarterly_Newsletter,_Winter_2012| 2012-1-27]]
| [[SGD_Quarterly_Newsletter,_Spring_2012| 2012-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2012| 2012-8-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2012| 2012-12-13]]
|- bgcolor="E6E6FA"
| '''2011'''
| [[SGD_Quarterly_Newsletter,_Winter_2011| 2011-2-18]]
| [[SGD_Quarterly_Newsletter,_Spring_2011| 2011-5-5]]
| [[SGD_Quarterly_Newsletter,_Summer_2011| 2011-8-11]]
|
|-
| '''2010'''
| [[SGD_Quarterly_Newsletter,_Winter_2010| 2010-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2010| 2010-4-29]]
| [[SGD_Quarterly_Newsletter,_Summer_2010| 2010-7-22]]
| [[SGD_Quarterly_Newsletter,_Fall_2010| 2010-11-1]]
|- bgcolor="E6E6FA"
| '''2009'''
| [[SGD_Quarterly_Newsletter,_Winter_2009| 2009-2-3]]
| [[SGD_Quarterly_Newsletter,_Spring_2009| 2009-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2009| 2009-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2009| 2009-11-6]]
|-
| '''2008'''
| [[SGD_Quarterly_Newsletter,_Winter_2008| 2008-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2008| 2008-4-30]]
| [[SGD_Quarterly_Newsletter,_Summer_2008| 2008-7-31]]
| [[SGD_Quarterly_Newsletter,_Fall_2008| 2008-11-3]]
|- bgcolor="E6E6FA"
| '''2007'''
| [[SGD_Quarterly_Newsletter,_Winter_2007| 2007-1-29]]
| [[SGD_Quarterly_Newsletter,_Spring_2007| 2007-5-7]]
| [[SGD_Quarterly_Newsletter,_Summer_2007| 2007-7-30]]
| [[SGD_Quarterly_Newsletter,_Fall_2007| 2007-11-8]]
|-
| '''2006'''
| [[SGD_Quarterly_Newsletter,_Winter_2006| 2006-2-2]]
| [[SGD_Quarterly_Newsletter,_Spring_2006| 2006-5-1]]
| [[SGD_Quarterly_Newsletter,_Summer_2006| 2006-7-20]]
| [[SGD_Quarterly_Newsletter,_Fall_2006| 2006-11-1]]
|- bgcolor="E6E6FA"
| '''2005'''
| [[SGD_Quarterly_Newsletter,_Winter_2005| 2005-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2005| 2005-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2005| 2005-7-29]]
| [[SGD_Quarterly_Newsletter,_Fall_2005| 2005-10-24]]
|-
| '''2004'''
| [[SGD_Quarterly_Newsletter,_Winter_2004| 2004-1-30]]
| [[SGD_Quarterly_Newsletter,_Spring_2004| 2004-4-26]]
| [[SGD_Quarterly_Newsletter,_Summer_2004| 2004-7-23]]
| [[SGD_Quarterly_Newsletter,_Fall_2004| 2004-11-18]]
|- bgcolor="E6E6FA"
| '''2003'''
| [[SGD_Quarterly_Newsletter,_Winter_2003| 2003-1-31]]
| [[SGD_Quarterly_Newsletter,_Spring_2003| 2003-4-28]]
| [[SGD_Quarterly_Newsletter,_Summer_2003| 2003-8-4]]
| [[SGD_Quarterly_Newsletter,_Fall_2003| 2003-10-31]]
|-
|}

File:yeast-meet.jpg

2015-02-27T03:18:12Z

Maria:

SGD Quarterly Newsletter, Spring 2015

2015-02-27T03:16:52Z

Maria: Created page with "Category:Newsletter '''About this newsletter:''' This is the Spring 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users ab..."

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Spring 2015 issue of the quarterly SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed 

==Announcing the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)==
[[File:yeast-meet.jpg|center|600px]]
'''From the ICYGMB Organizers:'''
It is our great pleasure to announce the 27th International Conference on Yeast Genetics and Molecular Biology (ICYGMB) to be held in Levico Terme, Trento, Italy, from 6th to 12th September 2015.
The conference is being co-organized by the Italian and the Ukrainian Scientific Committees under the auspices of the International Committee on Finances and Policy, together with the help of some international scientific societies such FEMS and EMBO.
The goal of the conference is to bring together investigators from around the world to present and discuss research focused on yeasts as model for the understanding of molecular biology and genetic processes, and as a paramount biotechnological microorganism.
Join us in this lovely part of the Trentino Region, in Italy, from 6th to 12th of September 2015 for this unique international event! Good science, food and location are waiting to make this a most memorable yeast Conference.
Yours sincerely,
Duccio Cavalieri & Andriy Sibirniy (ICYGMB Organisers), on behalf of the National and International Organizing Committees.

[http://yeast2015.eu/ Registration and abstract submission are now open.] Follow [http://twitter.com/yeastgenome @yeastgenome] and #yeast2015 on Twitter for updates on the conference.

==''S. cerevisiae'' Reference Genome Annotation Update R64.2.1 - November 2014==
SGD curators periodically update the chromosomal annotations of the ''S. cerevisiae'' Reference Genome, which is derived from strain [http://www.yeastgenome.org/strain/S288C/overview S288C]. Last November, the genome annotation was updated for the first time since the release of the major S288C resequencing update in February 2011. Note that the underlying sequence of 16 assembled nuclear chromosomes, plus the mitochondrial genome, remained unchanged in annotation release [http://www.yeastgenome.org/cgi-bin/search/luceneQS.fpl?query=R64.2 R64.2].1 (relative to genome sequence release R64.1.1).

The R64.2.1 annotation release included various updates and additions. The annotations of 2 existing proteins changed ([http://www.yeastgenome.org/locus/S000002505/overview#sequence GRX3]/YDR098C and [http://www.yeastgenome.org/locus/S000003001/overview#sequence HOP2]/YGL033W), and 1 new ORF ([http://www.yeastgenome.org/locus/S000178054/overview RDT1]/YCL054W-A) and 4 RNAs ([http://www.yeastgenome.org/locus/S000144908/overview RME2], [http://www.yeastgenome.org/locus/S000144910/overview RME3], [http://www.yeastgenome.org/locus/S000178119/overview IRT1], [http://www.yeastgenome.org/locus/S000077071/overview ZOD1]) were added to the genome annotation. Other additions include 8 nuclear [http://www.yeastgenome.org/cgi-bin/search/luceneQS.fpl?query=etc matrix attachment sites], and 8 mitochondrial [http://www.yeastgenome.org/cgi-bin/search/luceneQS.fpl?query=Mitochondrial+origin+of+replication origins of replication]. The coordinates of many autonomously replicating sequences (ARS) were updated, and many new ARS consensus sequences were added. Complete details can be found in the [http://www.yeastgenome.org/cgi-bin/chromosomeHistory.pl Summary of Chromosome Sequence and Annotation Updates].

The R64.2.1 annotation release is submitted to GenBank and tracked with Assembly accession [http://www.ncbi.nlm.nih.gov/assembly/GCA_000146045.2/ GCA_000146045.2]. The identical assembly and annotation is copied into NCBI's RefSeq dataset, under Assembly accession [http://www.ncbi.nlm.nih.gov/assembly/GCF_000146045.2/ GCF_000146045.2].

==SGD’s 60-second Help Videos==

SGD is actively expanding its library of short video tutorials designed to help you use various SGD tools and pages. Check out new videos available for our Interactions, Expression, and Phenotypes pages, accessible via the SGD [http://www.yeastgenome.org/help/video-tutorials Video Tutorials] page. All SGD videos are also available through SGD’s [https://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube] channel.

Please stay tuned over the coming weeks as we add more videos, and please [http://www.yeastgenome.org/suggestion contact us] if you have an idea for a great SGD 60-second Help!

== New Protein Modification and Processing Data ==
Have you ever wondered what happens to your favorite protein after translation? We've added data on protein modification and processing to SGD, and made it easier for you to access all protein modification, processing, and abundance data.

 We've captured phosphorylation, ubiquitination, succinylation, acetylation, and methylation data from the following 11 publications:
*[http://www.yeastgenome.org/reference/12872131/overview Peng et al. 2003]
*[http://www.yeastgenome.org/reference/14557538/overview Hitchcock et al. 2003]
*[http://www.yeastgenome.org/reference/18433149/overview Seyfried et al. 2008]
*[http://www.yeastgenome.org/reference/19837041/overview Vogtle et al. 2009]
*[http://www.yeastgenome.org/reference/21427232/overview Ziv et al. 2011]
*[http://www.yeastgenome.org/reference/22729381/overview Mommen et al. 2012]
*[http://www.yeastgenome.org/reference/22865919/overview Henriksen et al. 2012]
*[http://www.yeastgenome.org/reference/23749301/overview Swaney et al. 2013]
*[http://www.yeastgenome.org/reference/23793018/overview Kolawa et al. 2013]
*[http://www.yeastgenome.org/reference/23954790/overview Weinert et al. 2013]
*[http://www.yeastgenome.org/reference/25109467/overview Wang et al. 2014]

These data are shown on the Protein page for individual yeast proteins (in the Post-translational Modifications table located in the Sequence section of the page). They can also be retrieved in bulk using the new [http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_ProteinMods&scope=all Gene -> Protein Modifications] template of
SGD’s advanced search tool, [http://yeastmine.yeastgenome.org/yeastmine/templates.do YeastMine]. 

We have also added experimentally-determined amino-terminal sequence and acetylation data from two publications: [http://www.yeastgenome.org/reference/19837041/overview Vogtle et al. 2009] and [http://www.yeastgenome.org/reference/22729381/overview Mommen et al. 2012]. These data can be accessed via YeastMine using the [http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_ProteinMods_Ntermini Gene -> Experimental N-termini and N-terminal modifications] template.
Lastly, two new templates allow easy retrieval of protein abundance data curated from [http://www.yeastgenome.org/reference/14562106/overview Ghaemmaghami et al. 2003]. These data are also displayed on the Protein pages of individual proteins. The [http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_ProteinAbundance&scope=all Gene -> Protein Abundance] template retrieves molecules/cell counts for a gene or list of genes. The same data can be quickly filtered using the [http://yeastmine.yeastgenome.org/yeastmine/template.do?name=Genes_Proteins_AbundanceRange&scope=all Retrieve -> Proteins in a given molecules/cell abundance range] template.
Please explore these new data and YeastMine templates, and [http://www.yeastgenome.org/cgi-bin/suggestion send] us your feedback.

== New Alternative Reference Genomes ==
At SGD, we are expanding our scope to provide annotation and comparative analyses of all major budding yeast strains, and are making progress in our move toward providing multiple reference genomes. To this end, the following new S. cerevisiae genomes have been incorporated into SGD as “Alternative References”:
*[http://www.yeastgenome.org/strain/CENPK/overview CEN.PK]
*[http://www.yeastgenome.org/strain/D273-10B/overview D273-10B]
*[http://www.yeastgenome.org/strain/FL100/overview FL100]
*[http://www.yeastgenome.org/strain/JK9-3d/overview JK9-3d]
*[http://www.yeastgenome.org/strain/RM11-1a/overview RM11-1a]
*[http://www.yeastgenome.org/strain/SEY6210/overview SEY6210]
*[http://www.yeastgenome.org/strain/SK1/overview SK1]
*[http://www.yeastgenome.org/strain/Sigma1278b/overview Sigma1278b]
*[http://www.yeastgenome.org/strain/W303/overview W303]
*[http://www.yeastgenome.org/strain/X2180-1A/overview X2180-1A]
*[http://www.yeastgenome.org/strain/Y55/overview Y55]
These genomes are accessible via [http://www.yeastgenome.org/locus/ste6/sequence Sequence], [http://www.yeastgenome.org/strain/SK1/overview Strain], and [http://www.yeastgenome.org/contig/JRIH01000182.1/overview Contig] pages, and are the genomes for which we have curated the most phenotype data, and for which we aim to curate specific functional information. It is important to emphasize that we are not abandoning a standard sequence; [http://www.yeastgenome.org/strain/S288C/overview S288C] is still in place as “The Reference Genome”. However, we do recognize that it is helpful for students and researchers to be able to ‘shift the reference’, selecting the genome that is most appropriate and informative for a specific area of study. 
These new genome sequences have been also been added to SGD’s [http://www.yeastgenome.org/cgi-bin/blast-sgd.pl BLAST] datasets, multiple sequence [http://www.yeastgenome.org/cgi-bin/FUNGI/alignment.pl?locus=ste6 alignments], the [http://www.yeastgenome.org/cgi-bin/PATMATCH/nph-patmatch Pattern Matching] tool, and the [http://www.yeastgenome.org/download-data/sequence Downloads] site. Please explore these new genomes, and [http://www.yeastgenome.org/cgi-bin/suggestion send] us your feedback.

== Links to New Software and Resource in Community Wiki ==
*[http://www.massgeneral.org/cancer/research/motamediresources.aspx Genome Retrieval Script] (GRS) is a Python-based customizable, open source code for genome analysis. GRS comes with detailed directions about how it can be modified to retrieve custom sequences from any annotated genome. A link to GRS can be found in the Software section of the Community WIki.

*[http://www.massgeneral.org/cancer/research/motamediresources.aspx PRIMED] is a PRIMEr Database that was created using GRS. PRIMED contains the sequences of primers that can be used for deleting and C-terminally tagging every protein-coding gene in five of the most commonly used ''S. cerevisiae'' strains (S288C, RM11–1A, SK1, W303, and Y55) as well as ''S. pombe''. In addition to protein-coding genes, the authors also provide the complete deletion primer set for deleting all noncoding RNAs in each genome. PRIMED has been tested for accuracy and is available for download in Excel format. A link to PRIMED is available on the [http://wiki.yeastgenome.org/index.php/Methods Methods] page of the Community Wiki.

The publication describing the software and the primers it generated is [http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0116657 available] in PLOS ONE.

==Recent SGD Publications==

*Meldal BH, Forner-Martinez O, Costanzo MC, Dana J, Demeter J, Dumousseau M, Dwight SS, Gaulton A, Licata L, Melidoni AN, Ricard-Blum S, Roechert B, Skyzypek MS, Tiwari M, Velankar S, Wong ED, Hermjakob H, Orchard S (2014) The complex portal - an encyclopaedia of macromolecular complexes. Nucleic Acids Res. 43(Database issue):D479-84. doi: 10.1093/nar/gku975. [[media:Nucl._Acids_Res.-2015-Meldal-D479-84.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25313161 '''PMID: 25313161''']

*Chibucos MC, Mungall CJ, Balakrishnan R, Christie KR, Huntley RP, White O, Blake JA, Lewis SE, Giglio M (2014) Standardized description of scientific evidence using the Evidence Ontology (ECO). Database (Oxford) doi: 10.1093/database/bau075 [[media:Database-2014-Chibucos-database-bau075.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25052702 '''PMID: 25052702''']

==Upcoming Meetings==

*[http://www.Hendrix.edu/SERYM SERYM 2015: 22nd Annual Southeastern Regional Yeast Meeting]
:William J. Clinton Presidential Center, Little Rock, AR 
:March 17-22, 2015

*[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference]
:Pacific Grove, CA
:March 17-22, 2015

*[http://www.byg2015.ls.manchester.ac.uk The British Yeast Group (BYG) Meeting 2015]
:University of Manchester, Manchester, UK
:March 25-27, 2015

*[http://biocuration2015.big.ac.cn/ Biocuration 2015]*
:Beijing, China
:April 23-26, 2015

*[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition]
:Taormina, Sicily, Italy
:July 5-9, 2015

*[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course]
:Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
:July 21 - August 10, 2015

*[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology]*
:Levico Terme, Italy
:September 6-12, 2015

*[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)]
:Perugia, Italy
:September 13-16, 2015
 *asterisks indicate attendance by SGD

== Stay connected to SGD ==
SGD is on [http://www.linkedin.com/company/saccharomyces-genome-database LinkedIn], [http://www.facebook.com/pages/Saccharomyces-Genome-Database-SGD/139140876128200 Facebook], [http://twitter.com/yeastgenome Twitter], [https://plus.google.com/104199722908489380865/posts Google+], and [http://www.youtube.com/channel/UCnTiLvqP2aYeHEaJl7m9DUg YouTube]. Follow us to get updates on the latest developments at SGD and in the yeast community.
 
''Note: If you no longer wish to receive this newsletter, please contact the SGD Help Desk at [mailto:sgd-helpdesk@lists.stanford.edu sgd-helpdesk@lists.stanford.edu].''

SGD Publications

2015-02-17T16:11:55Z

Maria:

#Meldal BH, Forner-Martinez O, Costanzo MC, Dana J, Demeter J, Dumousseau M, Dwight SS, Gaulton A, Licata L, Melidoni AN, Ricard-Blum S, Roechert B, Skyzypek MS, Tiwari M, Velankar S, Wong ED, Hermjakob H, Orchard S (2014) The complex portal - an encyclopaedia of macromolecular complexes. Nucleic Acids Res. 43(Database issue):D479-84. doi: 10.1093/nar/gku975. [[media:Nucl._Acids_Res.-2015-Meldal-D479-84.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25313161 '''PMID: 25313161''']
#Chibucos MC, Mungall CJ, Balakrishnan R, Christie KR, Huntley RP, White O, Blake JA, Lewis SE, Giglio M (2014) Standardized description of scientific evidence using the Evidence Ontology (ECO). Database (Oxford) doi: 10.1093/database/bau075 [[media:Database-2014-Chibucos-database-bau075.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25052702 '''PMID: 25052702''']
#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) Saccharomyces Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
#Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of Saccharomyces cerevisiae: Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054. [[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple Saccharomyces cerevisiae strains at the Saccharomyces Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the Saccharomyces Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for S. cerevisiae data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) Saccharomyces Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the Saccharomyces Genome Database Project. (2009) New mutant phenotype data curation system in the Saccharomyces Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) Saccharomyces cerevisiae S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. Saccharomyces genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the saccharomyces genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock M, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: Saccharomyces Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of Saccharomyces cerevisiae. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. Saccharomyces cerevisiae. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

SGD Publications

2015-02-17T16:09:02Z

Maria:

#Chibucos MC, Mungall CJ, Balakrishnan R, Christie KR, Huntley RP, White O, Blake JA, Lewis SE, Giglio M (2014) Standardized description of scientific evidence using the Evidence Ontology (ECO). Database (Oxford) doi: 10.1093/database/bau075 [[media:Database-2014-Chibucos-database-bau075.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25052702 '''PMID: 25052702''']
#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) Saccharomyces Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
# Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of Saccharomyces cerevisiae: Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054. [[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple Saccharomyces cerevisiae strains at the Saccharomyces Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the Saccharomyces Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for S. cerevisiae data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) Saccharomyces Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the Saccharomyces Genome Database Project. (2009) New mutant phenotype data curation system in the Saccharomyces Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) Saccharomyces cerevisiae S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. Saccharomyces genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the saccharomyces genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock M, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: Saccharomyces Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of Saccharomyces cerevisiae. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. Saccharomyces cerevisiae. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

SGD Publications

2015-02-17T16:04:51Z

Maria:

#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) Saccharomyces Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
# Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of Saccharomyces cerevisiae: Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054. [[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple Saccharomyces cerevisiae strains at the Saccharomyces Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the Saccharomyces Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for S. cerevisiae data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) Saccharomyces Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the Saccharomyces Genome Database Project. (2009) New mutant phenotype data curation system in the Saccharomyces Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) Saccharomyces cerevisiae S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. Saccharomyces genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the saccharomyces genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock M, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: Saccharomyces Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of Saccharomyces cerevisiae. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. Saccharomyces cerevisiae. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

SGD Publications

2015-02-17T16:04:20Z

Maria:

#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) Saccharomyces Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
# Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of Saccharomyces cerevisiae: Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054.
[[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple Saccharomyces cerevisiae strains at the Saccharomyces Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the Saccharomyces Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for S. cerevisiae data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) Saccharomyces Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the Saccharomyces Genome Database Project. (2009) New mutant phenotype data curation system in the Saccharomyces Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) Saccharomyces cerevisiae S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. Saccharomyces genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the saccharomyces genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock M, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: Saccharomyces Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of Saccharomyces cerevisiae. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. Saccharomyces cerevisiae. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

File:Nucl. Acids Res.-2015-Meldal-D479-84.pdf

2015-02-17T16:00:18Z

Maria:

File:Database-2014-Chibucos-database-bau075.pdf

2015-02-17T15:58:06Z

Maria:

File:Database-2013-Balakrishnan-database-bat054.pdf

2015-02-17T15:55:22Z

Maria:

Meetings

2015-01-30T18:22:30Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.Hendrix.edu/SERYM SERYM 2015: 22nd Annual Southeastern Regional Yeast Meeting] 
William J. Clinton Presidential Center 
Little Rock, AR 
March 17-22, 2015

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://www.byg2015.ls.manchester.ac.uk The British Yeast Group (BYG) Meeting 2015] 
University of Manchester, Manchester, UK 
March 25-27, 2015 
Registration deadline: January 16, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 
July 21 - August 10, 2015 
Application Deadline: April 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: March 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
July 11-14, 2016 
Lisbon, Portugal 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2015-01-30T18:21:00Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.Hendrix.edu/SERYM SERYM 2015: 22nd Annual Southeastern Regional Yeast Meeting] 
William J. Clinton Presidential Center 
Little Rock, AR 
March 17-22, 2015

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://www.byg2015.ls.manchester.ac.uk The British Yeast Group (BYG) Meeting 2015] 
University of Manchester, Manchester, UK 
March 25-27, 2015 
Registration deadline: January 16, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

[http://meetings.cshl.edu/courses/2015/c-yeas15.shtml Yeast Genetics & Genomics Course] 
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
July 21 - August 10, 2015
Application Deadline: April 15, 2015

[http://yeast2015.eu/ ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology] 
Levico Terme, Italy 
September 6-12, 2015 
Abstract deadline: March 31, 2015

[http://www.issy32.com/ 32nd International Specialized Symposium on Yeasts (ISSY32)] 
Perugia (Italy) 
September 13-16, 2015 
Oral/Poster Submission deadline: May 31, 2015

[http://groups.tecnico.ulisboa.pt/bsrg/pyff6/index.php PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi] 
July 11-14, 2016 
Lisbon, Portugal 

[http://www.genetics2016.org/ TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Positions in yeast labs

2014-10-28T14:35:27Z

Maria: /* PhD and Post-doctoral positions in the lab of Martin Kupiec (genome stability) at Tel Aviv University, Israel., November 2014 */

=='''PhD and Post-doctoral positions in the lab of Martin Kupiec (genome stability) at Tel Aviv University, Israel, posted November 2014''' ==

We are looking highly motivated people to work on Genome Stability and telomeres in yeast. The lab http://www.tau.ac.il/lifesci/departments/biotech/members/kupiec/kupiec.html
works on processes that prevent cancer by keeping the genome stable. These include the repair of broken chromosomes, the handling of stalled DNA replication forks and the maintenance of normal-length telomeres. Candidates should send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

== '''Technician/Research assistant position available''' ==
A 3-year technician/research assistant position is available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. Routinely used techniques in the team include fission yeast genetics, molecular biology (DNA, RNA and protein biology) and microscopy. The role of the technician/engineer will be to provide help with such techniques to various members of the team as well as to take responsibility for a number of common tasks in the laboratory.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past experiences, as well as a letter detailing their motivation and interest in the position. Applicants should also request recommendation letters to be directly sent by one to three references.

== '''Post-doctoral positions available - Complexity and Variability in Cell Proliferation''' ==
Two three-year post-doctoral positions supported by a starting grant from the European Research Council (ERC) are available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed projects aim at understanding fundamental aspects of the control of cell proliferation, from the buffering of variability in the different mechanisms driving cell cycle progression to the evolution of complexity in cell cycle control.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

== '''POSTDOCTORAL POSITION - NIH, National Cancer Institute, Posted April 16, 2014''' ==

A postdoctoral position is available within the Optical Imaging Core of the Laboratory of Receptor Biology and Gene Expression (NCI/NIH) to conduct research in the regulation of transcription in Saccharomyces cerevisiae. The candidate is expected to have a background in yeast genetics and molecular biology and to be interested in extensive live imaging by fluorescence microscopy and in super-resolution methods.
Publications in the area of research:
Tatiana S. Karpova, Teresa Y. Chen, Brian L. Sprague, James G. McNally. Dynamic interactions of a transcription factor with DNA are accelerated by a chromatin remodeler. EMBO Reports. 5: 1064-1070, 2004
Tatiana S. Karpova, Min J. Kim, Corentin Spriet, Kip Nalley, Tim Stasevich, Zoulika Kherrouche, Laurent Heliot, and James G. McNally. Concurrent Fast and Slow Cycling of a Transcriptional Activator at an Endogenous Promoter. Science 319: 466-469, 2008
Applicants should contact Dr. Tatiana Karpova (karpovat@mail.nih.gov) and submit their CV.

=='''Opening for two postdoctoral positions in the Cell Signaling Research Group, UPF, Barcelona, Spain (posted April 2014)'''==

Post description:
We offer two postdoctoral research positions in the Cell Signaling Research Group led by Dr. Francesc Posas and Dr. Eulàlia de Nadal), at the Pompeu Fabra University, Barcelona, Spain.
The main objective of our group is the study of the molecular mechanisms of signal transduction mediated by SAPKs (Stress Activated Protein Kinases) in yeast cells, as well as to understand the complexity of adaptive responses generated by these enzymes. Regulation of gene expression and cell cycle are two of the most important aspects for cell adaptation to stress [Nadal-Ribelles M. et al, Mol Cell (2014); Duch A. et al, Nature (2013); Nadal-Ribelles M. et al, Genome Biol (2012); de Nadal E. and Posas F., Nat. Rev. Genet. (2011); Solé C. et al., EMBO J (2011); Regot S. et al., Nature (2011)].
We are looking for a highly motivated research scientist with consolidated experience in biochemistry and/or yeast genetics to work in these fields.

The Institute:
UPF is a young, public and modern university and called to become one of the leading European universities. Awarded with a CEI label (International Excellence Campus) by the Spanish Ministry of Education, UPF's indicators have made it a benchmark for the Spanish and European university systems.
Our group is integrated into the Biomedical Research Park of Barcelona (PRBB), one of the largest hubs of biomedical research in southern Europe.

For more information please visit the web site:
http://www.upf.edu/cellsignaling

=='''Postdoctoral position in Cell Biology, Univ. of Miami, Florida (posted April 2014)'''==

A Postdoctoral position is available in the lab of Dr. Sandra Lemmon, University of Miami, Miller School of Medicine. Research focuses on regulation of membrane dynamics in the yeast S. cerevisiae. Particular interests include the role of phosphorylation, the actin cytoskeleton, and lipids in endocytosis and the function of clathrin in endocytosis and sorting to the lysosome/vacuole. For information on research interests check: <http://biomed.miami.edu/?p=482&pid=208&m=facultyph&mid=0&item=9>.

Qualifications: Candidates should have a PhD in chemistry, biology, genetics or a related life science. Applicants with a background in cell biology, yeast genetics and molecular biology, fluorescence microscopy and/or lipid biochemistry are especially encouraged to apply. Please submit a curriculum vitae, publications, summary of past research experiences, research interests, and the names of three references to: Dr. Sandra Lemmon at <slemmon[at]miami[dot]edu>.

=='''Postdoctoral Fellowship in yeast evolutionary genomics at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a postdoctoral fellow to work on the evolution of gene expression in Saccharomyces yeast. The exact subject is flexible, but will likely involve using RNA-seq to answer fundamental questions about the mechanisms and consequences of gene expression evolution- especially in cases of evolutionary adaptations. The ideal candidate would have experience in yeast molecular biology techniques, as well as some familiarity with computational and/or evolutionary analysis. Salary and benefits are both above the NIH standards for postdocs. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Research Associate position (Ph.D. level) at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a Basic Life Science Research Associate (Ph.D. level). We apply the exciting tools of genomics and high-throughput sequencing to study the evolution of gene expression in a variety of species, but primarily budding yeast. Duties will include:

• Performing a wide range of experiments with the yeast S. cerevisiae. These will focus on a revolutionary new tool in molecular biology: genetic engineering via the CRISPR/Cas system. Other experiments will include gene knockout/replacement, chromatin immunoprecipitation, and high-throughput sequencing of mRNA.
• Teaching experimental protocols to others in the lab
• Keeping the lab's yeast strains/chemicals organized
• Overseeing an undergraduate student for dishwashing/media preparation

A Ph.D. in a Biology-related field is required, with at least 2 years spent working with S. cerevisiae. Also desirable (but not required) is experience with: mammalian cell culture, chromatin immunoprecipitation, and/or high-throughput sequencing. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Postdoctoral fellowship in cell cycle evolution at the Institute of Genetics and Development of Rennes, France''', January 2014==

A three-year post-doctoral position supported by a starting grant from the European Research Council (ERC) is available in the group of Dr. Damien Coudreuse at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed project aims at understanding fundamental aspects of the evolution of cell proliferation, from how cells overcome external challenges to common features of independent evolutionary processes. It will be based on the use of fission yeast cells operating with various minimal cell cycle control circuits as starting points for experimental evolution approaches. Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

Positions in yeast labs

2014-10-28T14:34:46Z

Maria:

=='''PhD and Post-doctoral positions in the lab of Martin Kupiec (genome stability) at Tel Aviv University, Israel.''', November 2014 ==

We are looking highly motivated people to work on Genome Stability and telomeres in yeast. The lab http://www.tau.ac.il/lifesci/departments/biotech/members/kupiec/kupiec.html
works on processes that prevent cancer by keeping the genome stable. These include the repair of broken chromosomes, the handling of stalled DNA replication forks and the maintenance of normal-length telomeres. Candidates should send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

== '''Technician/Research assistant position available''' ==
A 3-year technician/research assistant position is available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. Routinely used techniques in the team include fission yeast genetics, molecular biology (DNA, RNA and protein biology) and microscopy. The role of the technician/engineer will be to provide help with such techniques to various members of the team as well as to take responsibility for a number of common tasks in the laboratory.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past experiences, as well as a letter detailing their motivation and interest in the position. Applicants should also request recommendation letters to be directly sent by one to three references.

== '''Post-doctoral positions available - Complexity and Variability in Cell Proliferation''' ==
Two three-year post-doctoral positions supported by a starting grant from the European Research Council (ERC) are available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed projects aim at understanding fundamental aspects of the control of cell proliferation, from the buffering of variability in the different mechanisms driving cell cycle progression to the evolution of complexity in cell cycle control.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

== '''POSTDOCTORAL POSITION - NIH, National Cancer Institute, Posted April 16, 2014''' ==

A postdoctoral position is available within the Optical Imaging Core of the Laboratory of Receptor Biology and Gene Expression (NCI/NIH) to conduct research in the regulation of transcription in Saccharomyces cerevisiae. The candidate is expected to have a background in yeast genetics and molecular biology and to be interested in extensive live imaging by fluorescence microscopy and in super-resolution methods.
Publications in the area of research:
Tatiana S. Karpova, Teresa Y. Chen, Brian L. Sprague, James G. McNally. Dynamic interactions of a transcription factor with DNA are accelerated by a chromatin remodeler. EMBO Reports. 5: 1064-1070, 2004
Tatiana S. Karpova, Min J. Kim, Corentin Spriet, Kip Nalley, Tim Stasevich, Zoulika Kherrouche, Laurent Heliot, and James G. McNally. Concurrent Fast and Slow Cycling of a Transcriptional Activator at an Endogenous Promoter. Science 319: 466-469, 2008
Applicants should contact Dr. Tatiana Karpova (karpovat@mail.nih.gov) and submit their CV.

=='''Opening for two postdoctoral positions in the Cell Signaling Research Group, UPF, Barcelona, Spain (posted April 2014)'''==

Post description:
We offer two postdoctoral research positions in the Cell Signaling Research Group led by Dr. Francesc Posas and Dr. Eulàlia de Nadal), at the Pompeu Fabra University, Barcelona, Spain.
The main objective of our group is the study of the molecular mechanisms of signal transduction mediated by SAPKs (Stress Activated Protein Kinases) in yeast cells, as well as to understand the complexity of adaptive responses generated by these enzymes. Regulation of gene expression and cell cycle are two of the most important aspects for cell adaptation to stress [Nadal-Ribelles M. et al, Mol Cell (2014); Duch A. et al, Nature (2013); Nadal-Ribelles M. et al, Genome Biol (2012); de Nadal E. and Posas F., Nat. Rev. Genet. (2011); Solé C. et al., EMBO J (2011); Regot S. et al., Nature (2011)].
We are looking for a highly motivated research scientist with consolidated experience in biochemistry and/or yeast genetics to work in these fields.

The Institute:
UPF is a young, public and modern university and called to become one of the leading European universities. Awarded with a CEI label (International Excellence Campus) by the Spanish Ministry of Education, UPF's indicators have made it a benchmark for the Spanish and European university systems.
Our group is integrated into the Biomedical Research Park of Barcelona (PRBB), one of the largest hubs of biomedical research in southern Europe.

For more information please visit the web site:
http://www.upf.edu/cellsignaling

=='''Postdoctoral position in Cell Biology, Univ. of Miami, Florida (posted April 2014)'''==

A Postdoctoral position is available in the lab of Dr. Sandra Lemmon, University of Miami, Miller School of Medicine. Research focuses on regulation of membrane dynamics in the yeast S. cerevisiae. Particular interests include the role of phosphorylation, the actin cytoskeleton, and lipids in endocytosis and the function of clathrin in endocytosis and sorting to the lysosome/vacuole. For information on research interests check: <http://biomed.miami.edu/?p=482&pid=208&m=facultyph&mid=0&item=9>.

Qualifications: Candidates should have a PhD in chemistry, biology, genetics or a related life science. Applicants with a background in cell biology, yeast genetics and molecular biology, fluorescence microscopy and/or lipid biochemistry are especially encouraged to apply. Please submit a curriculum vitae, publications, summary of past research experiences, research interests, and the names of three references to: Dr. Sandra Lemmon at <slemmon[at]miami[dot]edu>.

=='''Postdoctoral Fellowship in yeast evolutionary genomics at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a postdoctoral fellow to work on the evolution of gene expression in Saccharomyces yeast. The exact subject is flexible, but will likely involve using RNA-seq to answer fundamental questions about the mechanisms and consequences of gene expression evolution- especially in cases of evolutionary adaptations. The ideal candidate would have experience in yeast molecular biology techniques, as well as some familiarity with computational and/or evolutionary analysis. Salary and benefits are both above the NIH standards for postdocs. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Research Associate position (Ph.D. level) at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a Basic Life Science Research Associate (Ph.D. level). We apply the exciting tools of genomics and high-throughput sequencing to study the evolution of gene expression in a variety of species, but primarily budding yeast. Duties will include:

• Performing a wide range of experiments with the yeast S. cerevisiae. These will focus on a revolutionary new tool in molecular biology: genetic engineering via the CRISPR/Cas system. Other experiments will include gene knockout/replacement, chromatin immunoprecipitation, and high-throughput sequencing of mRNA.
• Teaching experimental protocols to others in the lab
• Keeping the lab's yeast strains/chemicals organized
• Overseeing an undergraduate student for dishwashing/media preparation

A Ph.D. in a Biology-related field is required, with at least 2 years spent working with S. cerevisiae. Also desirable (but not required) is experience with: mammalian cell culture, chromatin immunoprecipitation, and/or high-throughput sequencing. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Postdoctoral fellowship in cell cycle evolution at the Institute of Genetics and Development of Rennes, France''', January 2014==

A three-year post-doctoral position supported by a starting grant from the European Research Council (ERC) is available in the group of Dr. Damien Coudreuse at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed project aims at understanding fundamental aspects of the evolution of cell proliferation, from how cells overcome external challenges to common features of independent evolutionary processes. It will be based on the use of fission yeast cells operating with various minimal cell cycle control circuits as starting points for experimental evolution approaches. Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

Positions in yeast labs

2014-10-28T14:34:13Z

Maria: /* Postdoctoral fellowship in cell cycle evolution at the Institute of Genetics and Development of Rennes, France, January 2014 */

== '''Technician/Research assistant position available''' ==
A 3-year technician/research assistant position is available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. Routinely used techniques in the team include fission yeast genetics, molecular biology (DNA, RNA and protein biology) and microscopy. The role of the technician/engineer will be to provide help with such techniques to various members of the team as well as to take responsibility for a number of common tasks in the laboratory.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past experiences, as well as a letter detailing their motivation and interest in the position. Applicants should also request recommendation letters to be directly sent by one to three references.

== '''Post-doctoral positions available - Complexity and Variability in Cell Proliferation''' ==
Two three-year post-doctoral positions supported by a starting grant from the European Research Council (ERC) are available in the group of Dr. Damien Coudreuse (www.synthecell.org) at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed projects aim at understanding fundamental aspects of the control of cell proliferation, from the buffering of variability in the different mechanisms driving cell cycle progression to the evolution of complexity in cell cycle control.Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

== '''POSTDOCTORAL POSITION - NIH, National Cancer Institute, Posted April 16, 2014''' ==

A postdoctoral position is available within the Optical Imaging Core of the Laboratory of Receptor Biology and Gene Expression (NCI/NIH) to conduct research in the regulation of transcription in Saccharomyces cerevisiae. The candidate is expected to have a background in yeast genetics and molecular biology and to be interested in extensive live imaging by fluorescence microscopy and in super-resolution methods.
Publications in the area of research:
Tatiana S. Karpova, Teresa Y. Chen, Brian L. Sprague, James G. McNally. Dynamic interactions of a transcription factor with DNA are accelerated by a chromatin remodeler. EMBO Reports. 5: 1064-1070, 2004
Tatiana S. Karpova, Min J. Kim, Corentin Spriet, Kip Nalley, Tim Stasevich, Zoulika Kherrouche, Laurent Heliot, and James G. McNally. Concurrent Fast and Slow Cycling of a Transcriptional Activator at an Endogenous Promoter. Science 319: 466-469, 2008
Applicants should contact Dr. Tatiana Karpova (karpovat@mail.nih.gov) and submit their CV.

=='''Opening for two postdoctoral positions in the Cell Signaling Research Group, UPF, Barcelona, Spain (posted April 2014)'''==

Post description:
We offer two postdoctoral research positions in the Cell Signaling Research Group led by Dr. Francesc Posas and Dr. Eulàlia de Nadal), at the Pompeu Fabra University, Barcelona, Spain.
The main objective of our group is the study of the molecular mechanisms of signal transduction mediated by SAPKs (Stress Activated Protein Kinases) in yeast cells, as well as to understand the complexity of adaptive responses generated by these enzymes. Regulation of gene expression and cell cycle are two of the most important aspects for cell adaptation to stress [Nadal-Ribelles M. et al, Mol Cell (2014); Duch A. et al, Nature (2013); Nadal-Ribelles M. et al, Genome Biol (2012); de Nadal E. and Posas F., Nat. Rev. Genet. (2011); Solé C. et al., EMBO J (2011); Regot S. et al., Nature (2011)].
We are looking for a highly motivated research scientist with consolidated experience in biochemistry and/or yeast genetics to work in these fields.

The Institute:
UPF is a young, public and modern university and called to become one of the leading European universities. Awarded with a CEI label (International Excellence Campus) by the Spanish Ministry of Education, UPF's indicators have made it a benchmark for the Spanish and European university systems.
Our group is integrated into the Biomedical Research Park of Barcelona (PRBB), one of the largest hubs of biomedical research in southern Europe.

For more information please visit the web site:
http://www.upf.edu/cellsignaling

=='''Postdoctoral position in Cell Biology, Univ. of Miami, Florida (posted April 2014)'''==

A Postdoctoral position is available in the lab of Dr. Sandra Lemmon, University of Miami, Miller School of Medicine. Research focuses on regulation of membrane dynamics in the yeast S. cerevisiae. Particular interests include the role of phosphorylation, the actin cytoskeleton, and lipids in endocytosis and the function of clathrin in endocytosis and sorting to the lysosome/vacuole. For information on research interests check: <http://biomed.miami.edu/?p=482&pid=208&m=facultyph&mid=0&item=9>.

Qualifications: Candidates should have a PhD in chemistry, biology, genetics or a related life science. Applicants with a background in cell biology, yeast genetics and molecular biology, fluorescence microscopy and/or lipid biochemistry are especially encouraged to apply. Please submit a curriculum vitae, publications, summary of past research experiences, research interests, and the names of three references to: Dr. Sandra Lemmon at <slemmon[at]miami[dot]edu>.

=='''Postdoctoral Fellowship in yeast evolutionary genomics at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a postdoctoral fellow to work on the evolution of gene expression in Saccharomyces yeast. The exact subject is flexible, but will likely involve using RNA-seq to answer fundamental questions about the mechanisms and consequences of gene expression evolution- especially in cases of evolutionary adaptations. The ideal candidate would have experience in yeast molecular biology techniques, as well as some familiarity with computational and/or evolutionary analysis. Salary and benefits are both above the NIH standards for postdocs. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Research Associate position (Ph.D. level) at Stanford University''', March 2014==

The Fraser Lab in the Department of Biology is seeking a Basic Life Science Research Associate (Ph.D. level). We apply the exciting tools of genomics and high-throughput sequencing to study the evolution of gene expression in a variety of species, but primarily budding yeast. Duties will include:

• Performing a wide range of experiments with the yeast S. cerevisiae. These will focus on a revolutionary new tool in molecular biology: genetic engineering via the CRISPR/Cas system. Other experiments will include gene knockout/replacement, chromatin immunoprecipitation, and high-throughput sequencing of mRNA.
• Teaching experimental protocols to others in the lab
• Keeping the lab's yeast strains/chemicals organized
• Overseeing an undergraduate student for dishwashing/media preparation

A Ph.D. in a Biology-related field is required, with at least 2 years spent working with S. cerevisiae. Also desirable (but not required) is experience with: mammalian cell culture, chromatin immunoprecipitation, and/or high-throughput sequencing. Please email a cover letter and CV to hbfraser[at]stanford[dot]edu.

=='''Postdoctoral fellowship in cell cycle evolution at the Institute of Genetics and Development of Rennes, France''', January 2014==

A three-year post-doctoral position supported by a starting grant from the European Research Council (ERC) is available in the group of Dr. Damien Coudreuse at the Institute of Genetics and Development of Rennes (IGDR), France (http://igdr.univ-rennes1.fr/english/). Research in this laboratory takes a synthetic biology approach in fission yeast to study the architecture and evolution of cell cycle regulation. The proposed project aims at understanding fundamental aspects of the evolution of cell proliferation, from how cells overcome external challenges to common features of independent evolutionary processes. It will be based on the use of fission yeast cells operating with various minimal cell cycle control circuits as starting points for experimental evolution approaches. Candidates should contact Dr. Damien Coudreuse at damien.coudreuse@univ-rennes1.fr and send a Curriculum Vitae, including past research experiences and publication records, as well as a letter detailing their motivation and interest in our work. Applicants should also request recommendation letters to be directly sent by two or three references.

Meetings

2014-10-14T17:09:10Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.issy31.com/ 31st International Specialised Symposium on Yeast] 
Vipava and Nova Gorica, Slovenia 
October 9-12, 2014

EMBL Conference [http://www.embl.de/training/events/2014/EAE14-01/index.html Experimental Approaches to Evolution and Ecology using Yeast & other Model Systems] 
EMBL Heidelberg, Germany 
October 12-15, 2014

Young Life Scientists' Symposium 2014: [http://yls2014.sciencesconf.org/ DNA Damage Response in Physiology and Disease] 
Rennes, France 
October 24, 2014 
Abstract deadline, September 15, 2014; Registration deadline, October 10, 2014

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology 
[http://www.tr3ntino.it/en/trentinos-holiday-areas/valsugana-lagorai/levico-terme.html Levico Terme], Italy 
September 7-12, 2015 
Download flyer: [[File:ICYGMB_2015.pdf]]

[http://www.genetics2016.org/ Yeast Meeting at TAGC 2016: The Allied Genetics Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://www.yeast-2011.org/ 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (download PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2014-10-14T01:14:05Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.issy31.com/ 31st International Specialised Symposium on Yeast] 
Vipava and Nova Gorica, Slovenia 
October 9-12, 2014

EMBL Conference [http://www.embl.de/training/events/2014/EAE14-01/index.html Experimental Approaches to Evolution and Ecology using Yeast & other Model Systems] 
EMBL Heidelberg, Germany 
October 12-15, 2014

Young Life Scientists' Symposium 2014: [http://yls2014.sciencesconf.org/ DNA Damage Response in Physiology and Disease] 
Rennes, France 
October 24, 2014 
Abstract deadline, September 15, 2014; Registration deadline, October 10, 2014

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology 
[http://www.tr3ntino.it/en/trentinos-holiday-areas/valsugana-lagorai/levico-terme.html Levico Terme], Italy 
September 7-12, 2015 
Download flyer: [[File:ICYGMB_2015.pdf]]

[http://www.genetics2016.org/ The Allied Genetics 2016 Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://www.yeast-2011.org/ 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (download PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2014-10-13T14:14:34Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.issy31.com/ 31st International Specialised Symposium on Yeast] 
Vipava and Nova Gorica, Slovenia 
October 9-12, 2014

EMBL Conference [http://www.embl.de/training/events/2014/EAE14-01/index.html Experimental Approaches to Evolution and Ecology using Yeast & other Model Systems] 
EMBL Heidelberg, Germany 
October 12-15, 2014

Young Life Scientists' Symposium 2014: [http://yls2014.sciencesconf.org/ DNA Damage Response in Physiology and Disease] 
Rennes, France 
October 24, 2014 
Abstract deadline, September 15, 2014; Registration deadline, October 10, 2014

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

[http://www.taosciences.it/ssbss2015/ Synthetic and Systems Biology Summer School: Biology meets Engineering and Computer Science - 2nd Edition] 
Taormina, Sicily, Italy 
July 5-9, 2015 
Student Application and Oral/Poster Submission deadline: February 15, 2015

ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology 
[http://www.tr3ntino.it/en/trentinos-holiday-areas/valsugana-lagorai/levico-terme.html Levico Terme], Italy 
September 7-12, 2015 
Download flyer: [[File:ICYGMB_2015.pdf]]

[http://www.genetics2016.org/ The Allied Genetics2016 Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://www.yeast-2011.org/ 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (download PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2014-10-10T00:33:06Z

Maria: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://www.issy31.com/ 31st International Specialised Symposium on Yeast] 
Vipava and Nova Gorica, Slovenia 
October 9-12, 2014

EMBL Conference [http://www.embl.de/training/events/2014/EAE14-01/index.html Experimental Approaches to Evolution and Ecology using Yeast & other Model Systems] 
EMBL Heidelberg, Germany 
October 12-15, 2014

Young Life Scientists' Symposium 2014: [http://yls2014.sciencesconf.org/ DNA Damage Response in Physiology and Disease] 
Rennes, France 
October 24, 2014 
Abstract deadline, September 15, 2014; Registration deadline, October 10, 2014

[http://www.genetics-gsa.org/fungal/2015/ 28th Fungal Genetics Conference] 
Pacific Grove, CA 
March 17-22, 2015

[http://biocuration2015.tilsi.org/ Biocuration 2015] 
Beijing, China 
April 23-26, 2015

ICYGMB Conference (YEAST 2015): 27th International Conference on Yeast Genetics and Molecular Biology 
[http://www.tr3ntino.it/en/trentinos-holiday-areas/valsugana-lagorai/levico-terme.html Levico Terme], Italy 
September 7-12, 2015 
Download flyer: [[File:ICYGMB_2015.pdf]]

[http://www.genetics2016.org/ The Allied Genetics2016 Conference] 
Orlando, FL, USA 
July 13-17, 2016 

=Past Yeast Meetings=
International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://www.yeast-2011.org/ 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV) | [http://www.yeastgenome.org/community/meetings/yeast07/ 2007] (XXIII) | [http://www.yeastgenome.org/community/meetings/yeast05/ 2005] (XXII) | [http://www.yeastgenome.org/community/meetings/yeast03/ 2003] (XXI) | [http://www.yeastgenome.org/community/meetings/yeast01/ 2001] (XX)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (download PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008] | [http://www.yeastgenome.org/community/meetings/yeast06/ 2006] | [http://www.yeastgenome.org/community/meetings/yeast04/ 2004] | [http://www.yeastgenome.org/community/meetings/yeast02/ 2002] | [http://www.yeastgenome.org/community/meetings/yeast00/ 2000] | [http://www.yeastgenome.org/community/meetings/yeast98/ 1998] | [http://www.yeastgenome.org/community/meetings/yeast96/ 1996]

Meetings

2014-10-10T00:30:21Z

Maria: /* Upcoming Conferences & Courses */

Meetings

2014-10-10T00:29:22Z

Maria: /* Upcoming Conferences & Courses */

Meetings

2014-09-16T19:33:08Z

Maria: /* Past Yeast Meetings */

Meetings

2014-09-16T19:31:42Z

Maria: /* Past Yeast Meetings */

File:Program Book Abstracts Yeast 2014.pdf

2014-09-16T19:27:51Z

Maria:

Meetings

2014-09-16T19:22:38Z

Maria: /* Upcoming Conferences & Courses */

Meetings

2014-09-16T19:19:40Z

Maria: /* Upcoming Conferences & Courses */