What's New in SGD in 2010

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GO Annotation Information - December 13, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ATP18/YML081C-A ATP19/YOL077W-A CHL1/YPL008W COA3/YJL062W-A KRE11/YGR166W
RCY1/YJL204C SKP2/YNL311C TRS33/YOR115C YPT31/YER031C YPT32/YGL210W

New Summary Paragraphs - December 6, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus.
  • During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: GAL4/YPL248C.

GO Annotation Information - December 6, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CDC48/YDL126C CLG1/YGL215W ECO1/YFR027W ENT3/YJR125C ENT5/YDR153C
EST3/YIL009C-A FUN30/YAL019W GET4/YOR164C GSG1/YDR108W HOS1/YPR068C
HOT13/YKL084W HSP104/YLL026W KRE11/YGR166W MDY2/YOL111C MGM1/YOR211C
SGT2/YOR007C SHP1/YBL058W SIR2/YDL042C SIR3/YLR442C SSC1/YJR045C
SSD1/YDR293C SUA5/YGL169W TRS120/YDR407C TRS130/YMR218C TSA1/YML028W
WSS1/YHR134W YDJ1/YNL064C YBR137W YDR379C-A

GO Annotation Information - November 29, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BET3/YKR068C BET5/YML077W DOM34/YNL001W HBS1/YKR084C HMX1/YLR205C
KAP120/YPL125W MSS116/YDR194C SLT2/YHR030C SUP35/YDR172W SUP45/YBR143C
TRS20/YBR254C TRS23/YDR246W

GO Annotation Information - November 22, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BET3/YKR068C BIK1/YCL029C BIM1/YER016W CDC55/YGL190C GEM1/YAL048C
GSG1/YDR108W KAR9/YPL269W NCS6/YGL211W NUP60/YAR002W REG1/YDR028C
RKR1/YMR247C RSP5/YER125W SNA4/YDL123W SPT10/YJL127C SPT21/YMR179W
SSB1/YDL229W SSB2/YNL209W SWE1/YJL187C TRS120/YDR407C TRS130/YMR218C
TRS20/YBR254C TRS23/YDR246W TRS31/YDR472W TRS33/YOR115C TUM1/YOR251C
UBA4/YHR111W URM1/YIL008W ZDS1/YMR273C ZDS2/YML109W YLR118C

GO Annotation Information - November 15, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
15S_RRNA/15S_rRNA BET3/YKR068C BET5/YML077W BUD22/YMR014W CCA1/YER168C
DIG1/YPL049C DIG2/YDR480W HMX1/YLR205C NCE102/YPR149W TBF1/YPL128C
YLR118C

New Search Templates Added to YeastMine - November 12, 2010

  • New pre-defined search templates have been added to YeastMine to query phenotype data, overlapping genes, intergenic regions and references curated to genes and/or literature topics. These templates can be accessed by clicking on the Templates tab and filtered by category using the pull down menu. With the addition of 11 templates in these categories, YeastMine can now be used to query the following datatypes: Chromosomal features, Protein features, GO annotations, Phenotypes, Interaction data and Literature. Please email us your comments and questions about YeastMine.
  • YeastMine is part of a joint project with Intermine, the Rat Genome Database, and The Zebrafish Model Organism Database to provide interoperability between the model organism databases via shared datatypes, such as Gene Ontology (GO) annotations or orthologs.

GO Annotation Information - November 8, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
NFS1/YCL017C REB1/YBR049C STE12/YHR084W SWA2/YDR320C THI6/YPL214C
UTP25/YIL091C

SGD Quarterly Newsletter - November 1, 2010

  • SGD sends out its quarterly newsletter to colleagues designated as contacts in SGD. An HTML version of the newsletter is available. If you would like to receive this letter in the future please use the Colleague Submission/Update form to let us know.

GO Annotation Information - November 1, 2010

GO Annotation Information - October 25, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AKR1/YDR264C AKR2/YOR034C ARL1/YBR164C BET2/YPR176C BET4/YJL031C
CDC43/YGL155W CDC65/tQ(CUG)M CPS1/YJL172W ERF2/YLR246W GCS1/YDL226C
GLN4/YOR168W GPB1/YOR371C HES1/YOR237W JJJ1/YNL227C JNM1/YMR294W
KAP114/YGL241W KES1/YPL145C LCB1/YMR296C LCB2/YDR062W MRS6/YOR370C
MSE1/YOL033W ORM1/YGR038W ORM2/YLR350W OSH2/YDL019C OSH3/YHR073W
OSH6/YKR003W OSH7/YHR001W PEP1/YBL017C PFA3/YNL326C PFA4/YOL003C
PFA5/YDR459C RAM1/YDL090C RAM2/YKL019W SAC1/YKL212W SHR5/YOL110W
SSB1/YDL229W SSB2/YNL209W SSZ1/YHR064C SWF1/YDR126W SWH1/YAR042W
TRE1/YPL176C TRE2/YOR256C TSC3/YBR058C-A ZUO1/YGR285C YKR078W
YNL108C YOL162W YOL163W tQ(UUG)C tQ(UUG)D1
tQ(UUG)D2 tQ(UUG)D3 tQ(UUG)E1 tQ(UUG)E2 tQ(UUG)H
tQ(UUG)L

GO Annotation Information - October 18, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ARP7/YPR034W ARP9/YMR033W ASR1/YPR093C CDC14/YFR028C CIN1/YOR349W
CIN2/YPL241C CIN4/YMR138W CPR1/YDR155C MAP1/YLR244C MAP2/YBL091C
MDE1/YJR024C PAC2/YER007W PAH1/YMR165C PAT1/YCR077C SCD6/YPR129W
SNF11/YDR073W SNF12/YNR023W SNF2/YOR290C SNF5/YBR289W SNF6/YHL025W
SPO7/YAL009W SWI1/YPL016W SWI3/YJL176C SWP82/YFL049W VHS1/YDR247W

GO Annotation Information - October 11, 2010

Yeast Biochemical Pathways Upgraded - October 5, 2010

  • The Yeast Biochemical Pathways have been upgraded to Pathway Tools version 14.0. This version offers a robust search system with auto-complete and filtering functionality to search for compounds, reactions, genes/proteins and pathways. In addition, the Advanced Query page has been enhanced to support structured queries to extract data. The yeastcyc14.0 data files that can be used with version 14.0 and the biochemical_pathways.tab file can be downloaded from SGD's downloads page. Other features of interest are: 1) a downloadable Yeast Biochemical Pathway Poster, which gives you an overview of the manually-curated pathways, and 2) the Comparative Analysis Tool, which allows you to make comparisons between different pathway databases, and compute summary statistics on a single database.

GO Annotation Information - October 4, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BRE5/YNR051C GET3/YDL100C GET4/YOR164C HOS1/YPR068C MDY2/YOL111C
MNI1/YIL110W SGT2/YOR007C SXM1/YDR395W UBP3/YER151C

GO Annotation Information - September 27, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AIM7/YDR063W HHO1/YPL127C HHT1/YBR010W HHT2/YNL031C POT1/YIL160C
RIF1/YBR275C RIF2/YLR453C RVS161/YCR009C RVS167/YDR388W SGF11/YPL047W
SGF73/YGL066W SUS1/YBR111W-A TIS11/YLR136C UBP8/YMR223W YDR541C

New Summary Paragraphs - September 20, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: RNR1/YER070W, RNR2/YJL026W, RNR3/YIL066C, and RNR4/YGR180C.

GO Annotation Information - September 20, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CIK1/YMR198W DID4/YKL002W DRE2/YKR071C GGA2/YHR108W KAR3/YPR141C
LSG1/YGL099W MCK1/YNL307C MRK1/YDL079C NEJ1/YLR265C PAD1/YDR538W
RIM11/YMR139W RLP24/YLR009W RPT4/YOR259C TAE1/YBR261C TAH18/YPR048W
VPS4/YPR173C YGK3/YOL128C

GO Annotation Information - September 13, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CDC5/YMR001C EBS1/YDR206W GRC3/YLL035W PIL1/YGR086C RLI1/YDR091C
YPK1/YKL126W YPK2/YMR104C

GO Annotation Information - September 6, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BUR6/YER159C COA4/YLR218C ETT1/YOR051C GEP4/YHR100C MOD5/YOR274W
NCB2/YDR397C NRK1/YNL129W RIB2/YOL066C TIM12/YBR091C

GO Annotation Information - August 30, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
COA4/YLR218C ERG9/YHR190W MDL1/YLR188W MDL2/YPL270W NDC1/YML031W
PCP1/YGR101W

SGD on Facebook and Twitter - August 26, 2010

  • SGD is now on Facebook and Twitter 'Like' us on Facebook or follow @yeastgenome on Twitter to get updates about new features, tips on using SGD, and interesting tidbits about yeast.

GO Annotation Information - August 23, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
MGS1/YNL218W OST2/YOR103C PAN2/YGL094C PGA1/YNL158W POP1/YNL221C
RMP1/YLR145W SET1/YHR119W SNM1/YDR478W STV1/YMR054W TUL1/YKL034W

GO Annotation Information - August 16, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ARR3/YPR201W ATG22/YCL038C EMP70/YLR083C HPA2/YPR193C MKC7/YDR144C
POP1/YNL221C PTC1/YDL006W TMN2/YDR107C TMN3/YER113C YPS1/YLR120C
YPS3/YLR121C YPS6/YIR039C YPS7/YDR349C ZPR1/YGR211W

GO Annotation Information - August 9, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ATG34/YOL083W GAD1/YMR250W GCD10/YNL062C GCD14/YJL125C GPI8/YDR331W
MYO5/YMR109W PEX8/YGR077C PUF6/YDR496C VPS60/YDR486C

GO Annotation Information - August 2, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BUB3/YOR026W IPL1/YPL209C MAD1/YGL086W MAD2/YJL030W MAD3/YJL013C
TOP2/YNL088W VPS60/YDR486C

New Summary Paragraphs - July 26, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: RPD3/YNL330C.

GO Annotation Information - July 26, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AIM7/YDR063W CHL4/YDR254W MIP1/YOR330C NPR2/YEL062W NPR3/YHL023C
PEX12/YMR026C PEX2/YJL210W RPD3/YNL330C SAP30/YMR263W SIN3/YOL004W
VAC8/YEL013W

SGD Quarterly Newsletter - July 23, 2010

  • SGD sends out its quarterly newsletter to colleagues designated as contacts in SGD. An HTML version of the newsletter is available. If you would like to receive this letter in the future please use the Colleague Submission/Update form to let us know.

GO Annotation Information - July 19, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
21S_RRNA/21S_rRNA ASK10/YGR097W BUB1/YGR188C CAR1/YPL111W CAR2/YLR438W
CHL4/YDR254W CSM3/YMR048W CTF19/YPL018W CTF3/YLR381W CTI6/YPL181W
DEP1/YAL013W EAF3/YPR023C ESA1/YOR244W FUS3/YBL016W GCN5/YGR252W
GPB1/YOR371C HDA1/YNL021W HOS1/YPR068C HOS3/YPL116W IML3/YBR107C
MCM16/YPR046W MCM21/YDR318W MCM22/YJR135C PHO23/YNL097C RCO1/YMR075W
REC8/YPR007C RGC1/YPR115W RPD3/YNL330C RPN11/YFR004W RPN12/YFR052W
RXT2/YBR095C RXT3/YDL076C SAP30/YMR263W SDS3/YIL084C SET2/YJL168C
SGO1/YOR073W SIN3/YOL004W SPO13/YHR014W STE11/YLR362W STE4/YOR212W
STE5/YDR103W STE7/YDL159W UBP6/YFR010W UME1/YPL139C UME6/YDR207C

Help SGD; take a survey - July 16, 2010

  • Please take our brief survey to let us know how you use SGD. The information you provide will help us prepare for our grant renewal this fall.

New resource links - July 14, 2010

  • Links to two new resources have been added to SGD: 1) GeneMANIA, a biological network integration for gene prioritization and functional prediction, and 2) the Complexome Database, a database of consensus protein complex predictions. Links to both resources have been added to the "Interactions" pull-down menu on the Locus Summary page, and to the "Interaction Resources" sections at the bottom of the Protein and Interaction pages. See Warde-Farley, et al. Nucleic Acids Res. 2010 for more information on GeneMANIA, and Benschop, et al. Molecular Cell 2010 for more information on Complexome. Thanks to Quaid Morris and Sylva Donaldson for help in setting up the GeneMANIA links and to Patrick Kemmeren for helping set up the Complexome links.

GO Annotation Information - July 12, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BUD27/YFL023W CDC45/YLR103C CDC50/YCR094W CDC7/YDL017W CHL4/YDR254W
CTF4/YPR135W DPB11/YJL090C ETP1/YHL010C GOS1/YHL031C ILV3/YJR016C
IML3/YBR107C MAM1/YER106W MCM10/YIL150C MCM2/YBL023C MCM3/YEL032W
MCM4/YPR019W MCM5/YLR274W MCM6/YGL201C MCM7/YBR202W PSF1/YDR013W
PSF2/YJL072C PSF3/YOL146W SEC20/YDR498C SED5/YLR026C SFT1/YKL006C-A
SGO1/YOR073W SLD2/YKL108W SLD3/YGL113W SLD5/YDR489W STE7/YDL159W
TAH11/YJR046W VNX1/YNL321W YKT6/YKL196C

New Summary Paragraphs - July 5, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
PRE1/YER012W PRE10/YOR362C PRE2/YPR103W PRE3/YJL001W PRE4/YFR050C
PRE5/YMR314W PRE6/YOL038W PRE7/YBL041W PRE8/YML092C PRE9/YGR135W
PUP1/YOR157C PUP2/YGR253C PUP3/YER094C SCL1/YGL011C

GO Annotation Information - July 5, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BET1/YIL004C BOS1/YLR078C CKA1/YIL035C CKB1/YGL019W CKB2/YOR039W
FSP2/YJL221C GPX1/YKL026C GYP7/YDL234C IMA1/YGR287C IMA2/YOL157C
IMA3/YIL172C IMA5/YJL216C KTR1/YOR099W KTR3/YBR205W MAG1/YER142C
MSY1/YPL097W NAT3/YPR131C OSM1/YJR051W PRB1/YEL060C SEC22/YLR268W
SED5/YLR026C STE6/YKL209C UFE1/YOR075W USE1/YGL098W YEL047C

New Summary Paragraphs - June 28, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: TOF1/YNL273W.

GO Annotation Information - June 28, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ACT1/YFL039C ADE8/YDR408C AFG1/YEL052W AFT2/YPL202C AHP1/YLR109W
ALO1/YML086C ARG4/YHR018C ARH1/YDR376W ASK10/YGR097W ATX1/YNL259C
CCP1/YKR066C DOT5/YIL010W EOS1/YNL080C ERG11/YHR007C ERG24/YNL280C
ERG3/YLR056W ERG4/YGL012W ERG5/YMR015C ERG9/YHR190W ERV1/YGR029W
FAP7/YDL166C FSP2/YJL221C GAD1/YMR250W GCY1/YOR120W GIS1/YDR096W
GLR1/YPL091W GND1/YHR183W GPX1/YKL026C GPX2/YBR244W GRE3/YHR104W
GRX1/YCL035C GRX2/YDR513W GRX3/YDR098C GRX4/YER174C GRX5/YPL059W
GSG1/YDR108W HSP12/YFL014W HYR1/YIR037W IGO1/YNL157W IGO2/YHR132W-A
IMA1/YGR287C IMA2/YOL157C IMA3/YIL172C IMA5/YJL216C LOT6/YLR011W
LTV1/YKL143W LYS1/YIR034C LYS20/YDL182W LYS21/YDL131W MAL11/YGR289C
MAL12/YGR292W MAL23 MAL32/YBR299W MCR1/YKL150W MET2/YNL277W
MPR1 MSN2/YMR037C MSN4/YKL062W MXR1/YER042W MXR2/YCL033C
NCE103/YNL036W NGR1/YBR212W NPR2/YEL062W OCA1/YNL099C OXR1/YPL196W
OYE2/YHR179W OYE3/YPL171C PEP3/YLR148W POS5/YPL188W PRE1/YER012W
PRE10/YOR362C PRE2/YPR103W PRE3/YJL001W PRE4/YFR050C PRE5/YMR314W
PRE6/YOL038W PRE7/YBL041W PRE8/YML092C PRE9/YGR135W PRX1/YBL064C
PUP1/YOR157C PUP2/YGR253C PUP3/YER094C RCK2/YLR248W SCL1/YGL011C
SIT4/YDL047W SKN7/YHR206W SRX1/YKL086W SVF1/YDR346C THR1/YHR025W
TIM18/YOR297C TMA19/YKL056C TRR1/YDR353W TRR2/YHR106W TRX1/YLR043C
TRX2/YGR209C TRX3/YCR083W TSA1/YML028W TSA2/YDR453C UBA4/YHR111W
UGA2/YBR006W URM1/YIL008W YAH1/YPL252C YAR1/YPL239W YBP1/YBR216C
YEF3/YLR249W YJU3/YKL094W YPR1/YDR368W YPT1/YFL038C ZTA1/YBR046C
YBL055C YDL124W YJR096W YKL069W

Beta release of YeastMine - June 22, 2010

  • Try the beta version of YeastMine for flexible queries and fast retrieval of chromosomal features, sequences, and GO-related annotations using predefined template queries or customized queries. New datatypes and additional templates will be added in the upcoming months. YeastMine is part of a joint project with Intermine, the Rat Genome Database RGD, and The Zebrafish Model Organism Database ZFIN to provide interoperability between the model organism databases via shared datatypes, such as Gene Ontology (GO) annotations or orthologs. Be a beta tester and <a href="/cgi-bin/redirect.pl?source=rssfeed&url=/cgi-bin/suggestion">email us</a> your comments and questions about YeastMine.

New file format for SGD's GO annotations file - June 22, 2010

  • The Gene Ontology Consortium has recently changed the format of the GO annotations file (gene_associations file, GAF) to version 2.0. The files contain two new columns (17 columns total): the Annotation Extension column and the Gene Product Form ID column. Details of format 2.0 are available at: GAF 2.0. SGD has updated the S. cerevisiae GAF to format 2.0 on its FTP site. Although SGD has not populated the two new columns with data, gene_associations file parsers/scripts could be affected by the format change.

New Summary Paragraphs - June 21, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: ADE4/YMR300C.

GO Annotation Information - June 21, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AXL1/YPR122W BUD6/YLR319C CHO1/YER026C CHO2/YGR157W CPT1/YNL130C
CYM1/YDR430C DCP2/YNL118C DOP1/YDR141C ERG1/YGR175C ERG10/YPL028W
ERG11/YHR007C ERG12/YMR208W ERG7/YHR072W ERG8/YMR220W ERG9/YHR190W
HMG1/YML075C HMG2/YLR450W HXT7/YDR342C IDI1/YPL117C MVD1/YNR043W
NGR1/YBR212W OPI3/YJR073C PFY1/YOR122C PIS1/YPR113W STE20/YHL007C
STE23/YLR389C UTP25/YIL091C

New Summary Paragraphs - June 14, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: [1].

GO Annotation Information - June 14, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AIM26/YKL037W BCH1/YMR237W BCH2/YKR027W BMH1/YER177W BMH2/YDR099W
BNA2/YJR078W BUD7/YOR299W CHS3/YBR023C CHS6/YJL099W CHS7/YHR142W
CKI1/YLR133W CKS1/YBR135W CPT1/YNL130C EFR3/YMR212C EPT1/YHR123W
ERC1/YHR032W EXO70/YJL085W FCJ1/YKR016W GFA1/YKL104C GUT2/YIL155C
ICY2/YPL250C MDM36/YPR083W MET22/YOL064C MZM1/YDR493W NGR1/YBR212W
PCM1/YEL058W PFY1/YOR122C PIS1/YPR113W RAD53/YPL153C RHO2/YNL090W
RHO3/YIL118W RHO4/YKR055W RHO5/YNL180C SKT5/YBL061C SPF1/YEL031W
YEA4/YEL004W YIL165C YOR019W YPR146C

Resources for post-translational modifications - June 10, 2010

  • A new 'Post-translational modifications' section has been added on the Locus Summary and Protein Info pages. This section includes links to PhosphoPep, which was previously accessible from the 'Protein Info & Structure' pull-down, and new links to PhosphoGRID, a curated database of phosphorylation sites. For more information about PhosphoGRID see Stark C, et al. (2010) PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. Database (Oxford) 2010:bap026. Thanks to Chris Stark and Mike Tyers for help in setting up the new links to PhosphoGRID.

GO Annotation Information - June 7, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ASK10/YGR097W BLM10/YFL007W CCL1/YPR025C CDC48/YDL126C EFM1/YHL039W
ERC1/YHR032W FAS1/YKL182W KGD2/YDR148C KIN28/YDL108W LHS1/YKL073W
PER33/YLR064W POM33/YLL023C PSK1/YAL017W PSK2/YOL045W RAD3/YER171W
RGC1/YPR115W RGD1/YBR260C SEE1/YIL064W SHP1/YBL058W SSL1/YLR005W
SSL2/YIL143C TFB1/YDR311W TFB2/YPL122C TFB4/YPR056W TFB5/YDR079C-A
YDR338C

GO Annotation Information - May 31, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BET4/YJL031C CUE1/YMR264W CUE2/YKL090W CUE3/YGL110C CUE5/YOR042W
ENT5/YDR153C HMT1/YBR034C HSL7/YBR133C MDS3/YGL197W MRS6/YOR370C
PHM6/YDR281C PPM1/YDR435C PUT2/YHR037W RMD8/YFR048W RMT2/YDR465C
RPD3/YNL330C RPN1/YHR027C RPN10/YHR200W RPN12/YFR052W RPN2/YIL075C
RPN3/YER021W RPN6/YDL097C RPN7/YPR108W RPT1/YKL145W RPT2/YDL007W
RPT3/YDR394W RPT4/YOR259C RPT5/YOR117W RPT6/YGL048C RTT10/YPL183C
SEC17/YBL050W SUV3/YPL029W TLG1/YDR468C TLG2/YOL018C UBC7/YMR022W
VPS45/YGL095C VPS9/YML097C VTI1/YMR197C YPT1/YFL038C

Additional DNA binding site motifs available - May 26, 2010

  • Transcription factor DNA binding motifs determined by Badis, et al. (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell 32(6):878-87 have been added to the Locus Summary pages of 112 DNA binding proteins (for an example, see ABF2). Each binding site can be viewed in the "Regulatory Role" section of the page and is accompanied by a link to search intergenic regions in the genome for all such motifs. Thanks to Gwenael Badis-Breard, Esther Chan, Carl de Boer, and Tim Hughes for providing the data.

New Summary Paragraphs - May 24, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
BET2/YPR176C BET4/YJL031C CDC14/YFR028C CUP1-1/YHR053C CUP1-2/YHR055C
DAL80/YKR034W MRS6/YOR370C VPS21/YOR089C YPT1/YFL038C YPT10/YBR264C
YPT11/YNL304W YPT31/YER031C YPT32/YGL210W YPT52/YKR014C YPT53/YNL093W
YPT6/YLR262C YPT7/YML001W

GO Annotation Information - May 24, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ARF1/YDL192W ARF2/YDL137W ASH1/YKL185W BET2/YPR176C BET4/YJL031C
BNI1/YNL271C BNR1/YIL159W CCL1/YPR025C CTI6/YPL181W CUP1-1/YHR053C
CUP1-2/YHR055C DEP1/YAL013W EAF3/YPR023C ENB1/YOL158C FAS1/YKL182W
GEA1/YJR031C GEA2/YEL022W KIN28/YDL108W LAT1/YNL071W MSS1/YMR023C
MTO1/YGL236C PDA1/YER178W PDB1/YBR221C PDX1/YGR193C PEP12/YOR036W
PEP3/YLR148W PEP5/YMR231W PEP7/YDR323C PHO23/YNL097C POR1/YNL055C
POR2/YIL114C PUT1/YLR142W RAD3/YER171W RCO1/YMR075W RPD3/YNL330C
RXT2/YBR095C RXT3/YDL076C SAP30/YMR263W SDS3/YIL084C SEC7/YDR170C
SIN3/YOL004W SLM3/YDL033C SSL1/YLR005W SSL2/YIL143C STB1/YNL309W
STB2/YMR053C TAE1/YBR261C TFB1/YDR311W TFB2/YPL122C TFB3/YDR460W
TFB4/YPR056W TFB5/YDR079C-A UME1/YPL139C UME6/YDR207C VAM6/YDL077C
VPS15/YBR097W VPS16/YPL045W VPS21/YOR089C VPS3/YDR495C VPS33/YLR396C
VPS41/YDR080W VPS45/YGL095C VPS9/YML097C

New Summary Paragraphs - May 17, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
AAC1/YMR056C AAC3/YBR085W OLE1/YGL055W PET9/YBL030C RAD24/YER173W
SEC17/YBL050W SEC18/YBR080C SEC4/YFL005W SLY1/YDR189W

GO Annotation Information - May 17, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BIO2/YGR286C CLG1/YGL215W CST9/YLR394W ELG1/YOR144C FAS1/YKL182W
FAS2/YPL231W HFM1/YGL251C INM1/YHR046C INM2/YDR287W MAK5/YBR142W
MBP1/YDL056W MIC14/YDR031W MIC17/YMR002W MMF1/YIL051C MYO4/YAL029C
ORC6/YHR118C PCL1/YNL289W PCL5/YHR071W PEP3/YLR148W PEP5/YMR231W
PEX19/YDL065C PEX3/YDR329C PHO80/YOL001W PHO85/YPL031C PUB1/YNL016W
RIF1/YBR275C RIM101/YHL027W RPL35A/YDL191W RPL35B/YDL136W SEC17/YBL050W
SEC18/YBR080C SIC1/YLR079W SLY1/YDR189W SNF7/YLR025W USO1/YDL058W
VAM3/YOR106W VPS16/YPL045W VPS33/YLR396C YOP1/YPR028W ZIP1/YDR285W
ZIP2/YGL249W YKR043C

GO Annotation Information - May 10, 2010

  • During the past week, the GO annotations have been updated for the following features: <p />
List of Features with GO Annotations Updated During the Past Week
BCK1/YJL095W BUD22/YMR014W COX5B/YIL111W ENP2/YGR145W FPK1/YNR047W
HNT3/YOR258W JIP5/YPR169W LSM6/YDR378C LSM7/YNL147W MEC1/YBR136W
MID2/YLR332W MKK1/YOR231W MKK2/YPL140C MPT5/YGL178W MTL1/YGR023W
NEW1/YPL226W PHO80/YOL001W PKC1/YBL105C PRI1/YIR008C PRI2/YKL045W
PUB1/YNL016W PUF4/YGL014W PUF6/YDR496C PZF1/YPR186C RIM101/YHL027W
RNH201/YNL072W RNH202/YDR279W RNH203/YLR154C RPC11/YDR045C SAC3/YDR159W
SEC17/YBL050W SEC18/YBR080C SEC2/YNL272C SEC4/YFL005W SGD1/YLR336C
SLG1/YOR008C SLT2/YHR030C SNG1/YGR197C SNU66/YOR308C TIF4631/YGR162W
TSR3/YOR006C TSR4/YOL022C VAC14/YLR386W WSC3/YOL105C YPK1/YKL126W
YCL012C YDL063C YIL091C

New Summary Paragraphs - May 3, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
RET1/YOR207C RPA12/YJR063W RPA135/YPR010C RPA14/YDR156W RPA190/YOR341W
RPA34/YJL148W RPA43/YOR340C RPA49/YNL248C RPB10/YOR210W RPB11/YOL005C
RPB2/YOR151C RPB3/YIL021W RPB4/YJL140W RPB5/YBR154C RPB7/YDR404C
RPB8/YOR224C RPB9/YGL070C RPC10/YHR143W-A RPC11/YDR045C RPC17/YJL011C
RPC19/YNL113W RPC25/YKL144C RPC31/YNL151C RPC34/YNR003C RPC37/YKR025W
RPC40/YPR110C RPC53/YDL150W RPC82/YPR190C RPO21/YDL140C RPO26/YPR187W
RPO31/YOR116C

GO Annotation Information - May 3, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CST6/YIL036W CTF4/YPR135W HRK1/YOR267C MSH3/YCR092C NPR1/YNL183C
OPY1/YBR129C OXP1/YKL215C RPC11/YDR045C RPC17/YJL011C RPC19/YNL113W
RPC25/YKL144C RPC31/YNL151C RPC34/YNR003C RPC37/YKR025W RPC40/YPR110C
RPC53/YDL150W RPC82/YPR190C SNA2/YDR525W-A YDL025C

SGD Quarterly Newsletter - April 30, 2010

  • SGD sends out its quarterly newsletter to colleagues designated as contacts in SGD. An HTML version of the newsletter is available. If you would like to receive this letter in the future please use the Colleague Submission/Update form to let us know.

New Summary Paragraphs - April 26, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: BNI1/YNL271C, BNR1/YIL159W, FAS1/YKL182W and FAS2/YPL231W.
  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CLF1/YLR117C GCN4/YEL009C GIS2/YNL255C GIS3/YLR094C GIS4/YML006C
KNS1/YLL019C LAS1/YKR063C MCM1/YMR043W OLE1/YGL055W RET1/YOR207C
RNA170 RPB5/YBR154C RPB8/YOR224C RPC19/YNL113W RPC25/YKL144C
RPC31/YNL151C RPC34/YNR003C RPC37/YKR025W RPC40/YPR110C RPC53/YDL150W
RPC82/YPR190C RPO26/YPR187W RPO31/YOR116C RTG2/YGL252C STB3/YDR169C

GO Annotation Information - April 19, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AQR1/YNL065W ATR1/YML116W CCC2/YDR270W CMC4/YMR194C-B DHH1/YDL160C
DOP1/YDR141C ECM1/YAL059W FLR1/YBR008C LIP5/YOR196C LSM12/YHR121W
MON2/YNL297C NUG1/YER006W PBP4/YDL053C PHO86/YJL117W PTR2/YKR093W
QDR1/YIL120W QDR2/YIL121W QDR3/YBR043C RAD51/YER095W RPA12/YJR063W
RPA14/YDR156W RPA34/YJL148W RPA49/YNL248C SGE1/YPR198W VBA2/YBR293W
VTI1/YMR197C YHM2/YMR241W YDL160C-A YOL086W-A

Additional DNA binding site motifs added - April 15, 2010

  • DNA binding site motif sequences, as described in Zhu, et al. (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors, Genome Res. 19:556, have been added to the "Regulatory Role" section of the Locus Summary pages of 89 known and predicted transcription factors (for an example, see NDT80). Each binding site sequence is accompanied by a link to search intergenic regions in the genome for all such motifs. Thanks to Kimberly Robasky and Martha Bulyk for providing the data.

GO Annotation Information - April 12, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BNR1/YIL159W MNN9/YPL050C OXP1/YKL215C PDR17/YNL264C PSD2/YGR170W
RPA12/YJR063W RPA34/YJL148W RPA49/YNL248C TEL1/YBL088C TEL2/YGR099W
TRX1/YLR043C TRX2/YGR209C

New Summary Paragraphs - April 5, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: NHP6A/YPR052Cand NHP6B/YBR089C-A.

GO Annotation Information - April 5, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BNR1/YIL159W CHL1/YPL008W CLA4/YNL298W GAT1/YFL021W HIP1/YGR191W
MDM38/YOL027C PDR17/YNL264C PSD2/YGR170W RRP36/YOR287C SIR2/YDL042C
SKM1/YOL113W STE20/YHL007C TGL4/YKR089C UTH1/YKR042W YLH47/YPR125W
YDL183C

New Summary Paragraphs - March 29, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: NGG1/YDR176W.

GO Annotation Information - March 29, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
BPL1/YDL141W CYC8/YBR112C DAL80/YKR034W DGA1/YOR245C GCN4/YEL009C
GPI17/YDR434W GPI18/YBR004C GZF3/YJL110C NHP6A/YPR052C RPA43/YOR340C
VPS21/YOR089C YPK1/YKL126W YPT31/YER031C YPT32/YGL210W YPT52/YKR014C
YPT53/YNL093W YPT6/YLR262C YPT7/YML001W

New article about curation published in Molecular Genetics and Genomics - March 24, 2010

  • The process of literature curation is described in Hirschman, et al., A MOD(ern) perspective on literature curation, Mol Genet Genomics (2010), written by four curators from SGD, TAIR (The Arabidopsis Information Resource), ZFIN (The Zebrafish Information Network), and MGI (Mouse Genome Informatics). This perspective discusses how papers are identified and prioritized for curation, some of the challenges MOD curators face, and ways in which researchers and publishers can support the work of curators.

GO Annotation Information - March 22, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ATP14/YLR295C ATP22/YDR350C BPL1/YDL141W CDC42/YLR229C CLA4/YNL298W
DOM34/YNL001W ERR1/YOR393W ERR2/YPL281C ERR3/YMR323W GCN4/YEL009C
GLN3/YER040W HBS1/YKR084C HMO1/YDR174W ISN1/YOR155C MHR1/YDR296W
MMS22/YLR320W NCE102/YPR149W NHP6B/YBR089C-A NTG1/YAL015C PKH1/YDR490C
PKH2/YOL100W RHO3/YIL118W RTR1/YER139C SKM1/YOL113W STD1/YOR047C
STE20/YHL007C

New Summary Paragraphs - March 15, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: YVH1/YIR026C.

GO Annotation Information - March 15, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AAC1/YMR056C AAC3/YBR085W ACN9/YDR511W ADF1/YCL058W-A BDF1/YLR399C
BDF2/YDL070W CDC42/YLR229C DNA2/YHR164C EXO1/YOR033C FAA1/YOR317W
FAA4/YMR246W FIG2/YCR089W FYV5/YCL058C GCN4/YEL009C GCN5/YGR252W
LAT1/YNL071W MMS1/YPR164W MMS22/YLR320W NHP6A/YPR052C NHP6B/YBR089C-A
PDX1/YGR193C PET9/YBL030C PGM1/YKL127W PGM2/YMR105C RHO3/YIL118W
RSC4/YKR008W RTT101/YJL047C RTT107/YHR154W SGS1/YMR190C SNF2/YOR290C
STH1/YIL126W

New Summary Paragraphs - March 8, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: POB3/YML069W and SPT16/YGL207W.

GO Annotation Information - March 8, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ACB1/YGR037C ARP5/YNL059C BUG1/YDL099W CSE4/YKL049C FHL1/YPR104C
GAT1/YFL021W GAT2/YMR136W GOT1/YMR292W GPA1/YHR005C GRH1/YDR517W
HSE1/YHL002W IES1/YFL013C IES3/YLR052W MCD1/YDL003W MHR1/YDR296W
MSG5/YNL053W NHP10/YDL002C NTG1/YAL015C PLM2/YDR501W POB3/YML069W
PRP24/YMR268C RAS2/YNL098C SOD1/YJR104C SPT16/YGL207W TAF14/YPL129W
TOS4/YLR183C VPS27/YNR006W

New Summary Paragraphs - March 1, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
BDP1/YNL039W BRF1/YGR246C SPT15/YER148W YDC1/YPL087W YPC1/YBR183W
</li></ul><a name="030110_2"></a><p />

GO Annotation Information - March 1, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CWH41/YGL027C ECO1/YFR027W FAA1/YOR317W FAA2/YER015W FAA3/YIL009W
FAA4/YMR246W FAT1/YBR041W FIN1/YDR130C GAT1/YFL021W GCN4/YEL009C
GLC7/YER133W GLN3/YER040W GPA1/YHR005C IXR1/YKL032C MAP1/YLR244C
MCD1/YDL003W MSG5/YNL053W OST5/YGL226C-A PPS1/YBR276C RCE1/YMR274C
SCC2/YDR180W SCC4/YER147C SDP1/YIL113W SMC1/YFL008W SMC3/YJL074C
STE24/YJR117W TFC3/YAL001C

New Summary Paragraphs - February 15, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: <p />
List of Summary Paragraphs Added During the Past Week
CTT1/YGR088W FAA1/YOR317W FAA2/YER015W FAA3/YIL009W FAA4/YMR246W
FAT1/YBR041W FHL1/YPR104C MDL1/YLR188W MDL2/YPL270W

GO Annotation Information - February 15, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AVT6/YER119C CCM1/YGR150C CRF1/YDR223W ELF1/YKL160W FHL1/YPR104C
FKH1/YIL131C FKH2/YNL068C HCM1/YCR065W IFH1/YLR223C MRT4/YKL009W
NDD1/YOR372C ROX1/YPR065W RPP0/YLR340W SCH9/YHR205W SPP41/YDR464W
STE12/YHR084W TGL3/YMR313C UGA3/YDL170W VAC7/YNL054W YDC1/YPL087W
YPC1/YBR183W YVH1/YIR026C YGR251W

New Summary Paragraphs - February 8, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
REV1/YOR346W REV3/YPL167C REV7/YIL139C RPB10/YOR210W RPB11/YOL005C
RPB2/YOR151C RPB3/YIL021W RPB4/YJL140W RPB5/YBR154C RPB7/YDR404C
RPB8/YOR224C RPB9/YGL070C RPC10/YHR143W-A RPO21/YDL140C RPO26/YPR187W
RSP5/YER125W

GO Annotation Information - February 8, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ADH4/YGL256W CWP1/YKL096W DAL80/YKR034W DEM1/YBR163W ECM31/YBR176W
EHD3/YDR036C FAA1/YOR317W FAA2/YER015W FAA3/YIL009W FAA4/YMR246W
FAT1/YBR041W FHL1/YPR104C FYV4/YHR059W GLR1/YPL091W GPD2/YOL059W
GRX1/YCL035C GUT1/YHL032C IMD2/YHR216W JID1/YPR061C MDL1/YLR188W
MDL2/YPL270W MNL1/YHR204W MRT4/YKL009W MZM1/YDR493W PAD1/YDR538W
RAD23/YEL037C RAD6/YGL058W REV1/YOR346W REV3/YPL167C REV7/YIL139C
ROX1/YPR065W RPP0/YLR340W SAN1/YDR143C SEC7/YDR170C TGL3/YMR313C
TGL5/YOR081C TOM71/YHR117W TRX1/YLR043C TRX2/YGR209C UBR1/YGR184C
YDC1/YPL087W YEN1/YER041W YPC1/YBR183W YVH1/YIR026C YLR281C
YLR290C YNL122C tD(GUC)Q

New Summary Paragraphs - February 1, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: FKH1/YIL131C and FKH2/YNL068C.

GO Annotation Information - February 1, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
CAF4/YKR036C DNM1/YLL001W FIS1/YIL065C FKH1/YIL131C FKH2/YNL068C
MDV1/YJL112W PHO2/YDL106C PHO4/YFR034C PHO80/YOL001W PHO81/YGR233C
PHO85/YPL031C RIM8/YGL045W RPA12/YJR063W RPA135/YPR010C RPA14/YDR156W
RPA190/YOR341W RPA34/YJL148W RPA43/YOR340C RPA49/YNL248C RPC19/YNL113W
RPC40/YPR110C RRN3/YKL125W RRN5/YLR141W RRN6/YBL014C RRN7/YJL025W
RRN9/YMR270C SNC1/YAL030W STP22/YCL008C SYP1/YCR030C TGL2/YDR058C
TSA1/YML028W VAC8/YEL013W VPS1/YKR001C YPT1/YFL038C YVH1/YIR026C

SGD Quarterly Newsletter - January 29, 2010

  • SGD sends out its quarterly newsletter to colleagues designated as contacts in SGD. An HTML version of the newsletter is available. If you would like to receive this letter in the future please use the Colleague Submission/Update form to let us know.

New Summary Paragraphs - January 25, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: ALG9/YNL219C and RAD30/YDR419W.

GO Annotation Information - January 25, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
DEM1/YBR163W FKH1/YIL131C FKH2/YNL068C HMT1/YBR034C NCR1/YPL006W
RAD30/YDR419W RPA12/YJR063W RPA135/YPR010C RPA190/YOR341W RPA34/YJL148W
RPA43/YOR340C RPA49/YNL248C RPB10/YOR210W RPB11/YOL005C RPB2/YOR151C
RPB3/YIL021W RPB5/YBR154C RPB7/YDR404C RPB8/YOR224C RPB9/YGL070C
RPC10/YHR143W-A RPC19/YNL113W RPC40/YPR110C RPO21/YDL140C RPO26/YPR187W
VAC8/YEL013W VPS74/YDR372C

New genetic interaction data file available for download from SGD - January 22, 2010

  • A large set of genetic interaction data from Costanzo et al., The Genetic Landscape of a Cell, Science 327: 425-431

(2010) is available for download from SGD's Download Data Files page and will be available via the web interface in the future. This study presents 74,984 genetic interactions, comprising a functional map of the cell. Thanks to the authors for providing their data to SGD.

GO Annotation Information - January 18, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
ARF3/YOR094W ATG14/YBR128C ATG16/YMR159C CSI1/YMR025W CSN9/YDR179C
DCN1/YLR128W EMI5/YOL071W GPD1/YDL022W GTS1/YGL181W LAG2/YOL025W
MLP1/YKR095W PCI8/YIL071C RPB10/YOR210W RPB11/YOL005C RPB2/YOR151C
RPB3/YIL021W RPB4/YJL140W RPB5/YBR154C RPB7/YDR404C RPB8/YOR224C
RPB9/YGL070C RPC10/YHR143W-A RPO21/YDL140C RPO26/YPR187W RRI1/YDL216C
RRI2/YOL117W YEL1/YBL060W

New Summary Paragraphs - January 11, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:
List of Summary Paragraphs Added During the Past Week
SAR1/YPL218W SEC12/YNR026C SEC13/YLR208W SEC16/YPL085W SEC23/YPR181C
SEC24/YIL109C SEC31/YDL195W SED4/YCR067C SFB2/YNL049C SFB3/YHR098C

GO Annotation Information - January 11, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
AIM26/YKL037W APQ12/YIL040W ARO2/YGL148W ATG1/YGL180W ATG10/YLL042C
ATG11/YPR049C ATG12/YBR217W ATG13/YPR185W ATG16/YMR159C ATG17/YLR423C
ATG2/YNL242W ATG20/YDL113C ATG21/YPL100W ATG29/YPL166W ATG3/YNR007C
ATG33/YLR356W ATG4/YNL223W ATG5/YPL149W ATG7/YHR171W ATG8/YBL078C
ATG9/YDL149W BRR6/YGL247W CAB3/YKL088W CBK1/YNL161W CIS1/YDR022C
DCI1/YOR180C FPS1/YLL043W GTS1/YGL181W ICR1 LOS1/YKL205W
MRE11/YMR224C MSN5/YDR335W PEX11/YOL147C PWR1 RAD50/YNL250W
RGT2/YDL138W SAR1/YPL218W SEC12/YNR026C SEC23/YPR181C SED4/YCR067C
SFB2/YNL049C SFB3/YHR098C SIS2/YKR072C SNF3/YDL194W SNX4/YJL036W
SSD1/YDR293C TEF1/YPR080W TEF2/YBR118W TFC1/YBR123C TFC3/YAL001C
TFC4/YGR047C TPA1/YER049W VHS3/YOR054C XRS2/YDR369C YVC1/YOR087W
ZDS1/YMR273C ZDS2/YML109W YPR146C

Sequence and Annotation Updates - January 8, 2010

  • SGD curators periodically update the systematic sequence and its annotation. Information regarding changes can be found via the Summary of Chromosome Sequence and Annotation Updates and in the Locus History pages of affected features. Files on the SGD FTP site are updated weekly.
  • Between 2010-01-04 and 2010-01-05, two new ncRNAs were annotated on Chromosome IX, the annotation of ORF DIA2/YOR080W was changed, and the sequence of Chromosome XIV was changed, affecting the annotation of ORF SAL1/YNL083W.

Changes to files available from SGD - January 8, 2010

  • The following changes will be made to files available for download from SGD in February 2010: All files available in gene registry will be obsoleted. This means that they will no longer be available to download. The annotation_change.tab file will also be obsoleted. This means this file will no longer be available to download. For information regarding ORF qualifiers (Verified, Uncharacterized, Dubious), please use the already available SGD_features.tab file. Information regarding deleted or merged chromosomal features can be found in the new deleted_merged_features.tab file (described below). A new file called deleted_merged_features.tab will be available from http://downloads.yeastgenome.org/chromosomal_feature/. This file will list chromosomal features that have been deleted or merged. The format of the file is identical to the annotation_change.tab file.

New Summary Paragraphs - January 4, 2010

  • Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: HOG1/YLR113W.

GO Annotation Information - January 4, 2010

  • During the past week, the GO annotations have been updated for the following features:
List of Features with GO Annotations Updated During the Past Week
DCI1/YOR180C RGT2/YDL138W SNF3/YDL194W TPA1/YER049W YVC1/YOR087W
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