Contents
- 1 New Summary Paragraphs - December 16, 2008
- 2 GO Annotation Information - December 16, 2008
- 3 New Summary Paragraphs - December 9, 2008
- 4 GO Annotation Information - December 9, 2008
- 5 GO Annotation Information - November 25, 2008
- 6 GO Annotation Information - November 18, 2008
- 7 GO Annotation Information - November 11, 2008
- 8 SGD Quarterly Newsletter - November 5, 2008
- 9 GO Annotation Information - November 4, 2008
- 10 GO Annotation Information - October 28, 2008
- 11 New and Improved Textpresso - October 23, 2008
- 12 New links to FitDB - October 23, 2008
- 13 New Summary Paragraphs - October 21, 2008
- 14 Go Annotation Information - October 14, 2008
- 15 New Summary Paragraphs - October 7, 2008
- 16 GO Annotation Information - October 7, 2008
- 17 GO Annotation Information - September 30, 2008
- 18 GO Annotation Information - September 23, 2008
- 19 Biochemical Pathways Wall Poster - September 22, 2008
- 20 New Summary Paragraphs - September 16, 2008
- 21 GO Annotation Information - September 16, 2008
- 22 New Summary Paragraphs - September 9, 2008
- 23 GO Annotation Information - September 9, 2008
- 24 GO Annotation Information - September 2, 2008
- 25 New Summary Paragraphs - August 26, 2008
- 26 GO Annotation Information - August 26, 2008
- 27 GO Annotation Information - August 19, 2008
- 28 New Summary Paragraphs - August 12, 2008
- 29 GO Annotation Information - August 12, 2008
- 30 New Summary Paragraphs - August 5, 2008
- 31 GO Annotation Information - August 5, 2008
- 32 SGD Quarterly Newsletter - July 31, 2008
- 33 GO Annotation Information - July 29, 2008
- 34 MORE Functional Predictions Available as GO Annotations - July 23, 2008
- 35 New Summary Paragraphs - July 22, 2008
- 36 GO Annotation Information - July 22, 2008
- 37 Expanded Phenotype Data and New Curation System - July 17, 2008
- 38 Functional Predictions Available as GO Annotations - July 17, 2008
- 39 Improvements to the SGD Search - July 17, 2008
- 40 Improved Display, Sorting and Filtering of Interaction Data - July 17, 2008
- 41 New Summary Paragraphs - July 15, 2008
- 42 GO Annotation Information - July 15, 2008
- 43 New Summary Paragraphs - July 8, 2008
- 44 GO Annotation Informations - July 8, 2008
- 45 New Summary Paragraphs - July 1, 2008
- 46 GO Annotation Information - July 1, 2008
- 47 New Summary Paragraphs - June 24, 2008
- 48 GO Annotation Information - June 17, 2008
- 49 New Summary Paragraphs - June 10, 2008
- 50 GO Annotation Information - June 10, 2008
- 51 Sequence and Annotation Updates - June 6, 2008
- 52 GO Annotation Information - June 3, 2008
- 53 GO Annotation Information - May 27, 2008
- 54 GO Annotation Information - May 20, 2008
- 55 New Summary Paragraphs - May 13, 2008
- 56 GO Annotation Information - May 13, 2008
- 57 New Summary Paragraphs - May 6, 2008
- 58 GO Annotation Information - May 6, 2008
- 59 SGD Quarterly Newsletter - April 30, 2008
- 60 New Gene Ontology (GO) Evidence Codes - April 29, 2008
- 61 New Summary Paragraphs - April 29, 2008
- 62 GO Annotation Information - April 29, 2008
- 63 GO Annotation Information - April 22, 2008
- 64 New Wiki Tab - April 18, 2008
- 65 GO Annotation Information - April 15, 2008
- 66 New Summary Paragraphs - April 8, 2008
- 67 GO Annotation Information - April 8, 2008
- 68 Post job opportunities through SGD - April 2, 2008
- 69 GO Annotation Information - April 1, 2008
- 70 New Summary Paragraphs - March 25, 2008
- 71 GO Annotation Information - March 25, 2008
- 72 New Summary Paragraphs - March 18, 2008
- 73 GO Annotation Information - March 18, 2008
- 74 New Summary Paragraphs - March 11, 2008
- 75 GO Annotation Information - March 11, 2008
- 76 GO annotations with IEAs now in SGD's gene_association file - March 10, 2008
- 77 Sequence and Annotation Updates - March 7, 2008
- 78 New Summary Paragraphs - March 4, 2008
- 79 GO Annotation Information - March 4, 2008
- 80 Potential downtime at SGD - February 28, 2008
- 81 GO Annotation Information - February 26, 2008
- 82 New Summary Paragraphs - February 19, 2008
- 83 GO Annotation Information - February 19, 2008
- 84 Coming Soon: GO annotations with IEAs to be added to SGD's gene_association file on March 8th - February 14, 2008
- 85 New Summary Paragraphs - February 12, 2008
- 86 GO Annotation Information - February 12, 2008
- 87 SGD RSS Feed - February 12, 2008
- 88 SGD Quarterly Newsletter - January 31, 2008
- 89 Update on Yeast Biochemical Pathways - January 29, 2008
- 90 NAR Database Article - January 8, 2008
New Summary Paragraphs - December 16, 2008
- 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: CTK1/YKL139W, CTK2/YJL006C, CTK3/YML112W, TDH3/YGR192C.
GO Annotation Information - December 16, 2008
- 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
New Summary Paragraphs - December 9, 2008
- 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: FPR1/YNL135C
GO Annotation Information - December 9, 2008
- 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
GO Annotation Information - November 25, 2008
- 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
GO Annotation Information - November 18, 2008
- During the past week, the GO annotations have been updated for the following features:
GO Annotation Information - November 11, 2008
- 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
SGD Quarterly Newsletter - November 5, 2008
- 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 SGD Colleague Submission/Update form to let us know.
GO Annotation Information - November 4, 2008
- 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
GO Annotation Information - October 28, 2008
- During the past week, the GO annotations have been updated for the following features:
New and Improved Textpresso - October 23, 2008
- The SGD full-text literature search capability (powered by Textpresso) has been upgraded and expanded to include publications from 2008. The full-text literature search can be accessed via the Full-text search link on the home page, from a link on the SGD Search Options contents page, and from any Search results page where the search form is prefilled with your search query. The new Textpresso is installed on the first of a series of new servers that are being rolled out at SGD over the next few weeks.
New links to FitDB - October 23, 2008
- Links to the Yeast Fitness Database (FitDB), a website to view fitness defects in mutant yeast strains in the presence of various chemicals, as described in Hillenmeyer, et al., have been added to the "Phenotype" pull-down menu on the Locus Summary and Phentoype Details pages. Thanks to Maureen Hillenmeyer, Larry Heisler, and Guri Giaever for helping set up these links.
New Summary Paragraphs - October 21, 2008
- 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: RAD9/YDR217C.
Go Annotation Information - October 14, 2008
- 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
New Summary Paragraphs - October 7, 2008
- 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: YFH1/YDL120W.
GO Annotation Information - October 7, 2008
- 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
GO Annotation Information - September 30, 2008
- 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
GO Annotation Information - September 23, 2008
- 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
Biochemical Pathways Wall Poster - September 22, 2008
- The Biochemical Pathways poster on display at the 2008 YGMB meeting in Toronto can be downloaded from the Biochemical Pathways page. The poster can be printed for easy viewing as a wall chart. In addition, the Yeast Biochemical Pathways have been upgraded to Pathway Tools version 12.0. The yeastcyc12.0 data files that can be used with version 12.0 and the biochemical_pathways.tab file can be downloaded from SGD's FTP site.
New Summary Paragraphs - September 16, 2008
- 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: AGX1/YFL030W and MDH1/YKL085W.
GO Annotation Information - September 16, 2008
- 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
New Summary Paragraphs - September 9, 2008
- 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 Updated During the Past Week
GO Annotation Information - September 9, 2008
- 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
GO Annotation Information - September 2, 2008
- 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
New Summary Paragraphs - August 26, 2008
- 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 Updated During the Past Week
GO Annotation Information - August 26, 2008
- 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
GO Annotation Information - August 19, 2008
- 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
New Summary Paragraphs - August 12, 2008
- 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 Updated During the Past Week
GO Annotation Information - August 12, 2008
- 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
New Summary Paragraphs - August 5, 2008
- 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: ATG8/YBL078C.
GO Annotation Information - August 5, 2008
- 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
SGD Quarterly Newsletter - July 31, 2008
- 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 29, 2008
- 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
MORE Functional Predictions Available as GO Annotations - July 23, 2008
- SGD has incorporated computational GO annotations from a method published in Tian et. al., G enome Biology 2008 that combines guilt-by-profiling and guilt-by-association analysis to infer gene function. These data can be viewed in the computational GO annotation section (for example, see GO annotations for YCR041 W). Links to gene pages at the YeastFunc viewer are available on the GO Annotation details page in the 'Assigned By' column and in the 'Functional Analysis' pull-down on the righthand side of the Locus Summary pages. Thanks to Weidong Tian, John Beaver , and Fritz Roth for working with SGD on incorporating these data and links.
New Summary Paragraphs - July 22, 2008
- 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
GO Annotation Information - July 22, 2008
- 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
Expanded Phenotype Data and New Curation System - July 17, 2008
- SGD is now releasing our improved and expanded mutant phenotype pages. Over the past year, we re-curated existing mutant phenotypes and added more phenotype data, both using a new controlled-vocabulary system. The implementation of this system greatly increases the amount of detailed information that can be captured for each phenotype, and facilitates searching and comparison of mutant phenotypes. Each phenotype annotation contains a term representing the entity or process that is observed (e.g., sporulation efficiency, carbon source utilization, cell size) and a qualifier that describes the effect on that entity or process in the mutant (e.g., decreased, increased, abnormal). Additional fields display information such as strain background, allele name, conditions under which the phenotype is observed, or the identity of relevant chemicals. A brief version of the phenotype is displayed on the Locus Summary page for each gene, and the complete information is accessible via the 'Phenotype' tab at the top of the page (for example, see WHI3). SGD now contains more than 25,000 phenotype annotations, nearly double the previous number, and we will continue to build upon this annotation with the aim of providing comprehensive phenotype information. All of the information is searchable and may also be downloaded in bulk using SGD's Batch Download tool or FTP site.
Functional Predictions Available as GO Annotations - July 17, 2008
- SGD has incorporated computational GO annotations from the functional predictions based on the analysis of multiple high-throughput datasets published in Huttenhower and Troyanskaya, 2008. This method is described further in Myers et al., 2005, Myers et al., 2007, and Huttenhower et al., 2006. These data can be viewed in the computational GO annotation section (for example, see GO annotations for YDL156W). Thanks to Curtis Huttenhower and Olga Troyanskaya for working with SGD on incorporating these data.
Improvements to the SGD Search - July 17, 2008
- The SGD Quick Search has been expanded to retrieve information from 14 major categories including: names, descriptions, functional information, phenotype data, colleagues, authors, and external IDs. Results are now organized under topic headings that group similar types of information. This basic search is accessible from the top of most SGD pages, as well as from the Search Options page.
Improved Display, Sorting and Filtering of Interaction Data - July 17, 2008
- The Interactions page has been updated to allow physical and genetic interactions to be sorted and filtered based on an experimental method, reference, or phenotype. This table also includes notes about the interaction as well as the annotation type to facilitate the identification of high-throughput datasets. SGD now includes 121,580 curated physical and genetic interactions from the BioGRID version 2.0.42 release. New interactions are added on a monthly basis. These data are available over the web and via bulk download through both BioGRID and a new FTP file at SGD.
New Summary Paragraphs - July 15, 2008
- 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
GO Annotation Information - July 15, 2008
- 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
New Summary Paragraphs - July 8, 2008
- 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: CTA1/YDR256C
GO Annotation Informations - July 8, 2008
- 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
New Summary Paragraphs - July 1, 2008
- 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
GO Annotation Information - July 1, 2008
- 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
New Summary Paragraphs - June 24, 2008
- 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:MDJ1/YFL016C and VPS34/YLR240W.
GO Annotation Information - June 17, 2008
- During the past week, the GO annotations have been updated for the following features:
- List of Features with GO Annotations
New Summary Paragraphs - June 10, 2008
- 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 Week
GO Annotation Information - June 10, 2008
- During the past week, the GO annotations have been updated for the following features:
- List of Features with GO Annotations
Sequence and Annotation Updates - June 6, 2008
GO Annotation Information - June 3, 2008
- 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
GO Annotation Information - May 27, 2008
- 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
GO Annotation Information - May 20, 2008
- 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
New Summary Paragraphs - May 13, 2008
- 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
GO Annotation Information - May 13, 2008
- 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
New Summary Paragraphs - May 6, 2008
- 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: DDP1/YOR163W and PLC1/YPL268W
GO Annotation Information - May 6, 2008
- 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
SGD Quarterly Newsletter - April 30, 2008
- 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 Gene Ontology (GO) Evidence Codes - April 29, 2008
- The Gene Ontology Consortium (GOC) has added three new subcodes for the ISS (Inferred from Sequence or Structural Similarity) evidence code in order to distinguish the types of sequence-based methods used as evidence in making annotations: Inferred from Sequence Alignment (ISA), Inferred from Sequence Orthology (ISO), and Inferred from Sequence Model (ISM). Full documentation on these evidence codes is available at the GOC website.SGD has started using these new subcodes to annotate S. cerevisiae gene products as of April 16th, and these evidence codes are included on the Locus Summary pages, the GO Annotation details and references pages, the downloadable gene_association.sgd file and the GO Term Finder tool.
New Summary Paragraphs - April 29, 2008
- 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
GO Annotation Information - April 29, 2008
- 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
GO Annotation Information - April 22, 2008
- 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
New Wiki Tab - April 18, 2008
- In order to increase accessibility to SGD's Community Wiki, a new Wiki tab has been added to the set of navigation tabs found at the top of the following pages: Locus Summary, Locus History, Literature Guide, Gene Ontology evidence and references, Phenotype details and references, Interaction details and references, Expression Summary, and Protein Info. These Wiki tabs point to the locus-specific pages in the SGD Wiki. We invite researchers to edit the wiki pages for their favorite gene(s).
GO Annotation Information - April 15, 2008
- 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
New Summary Paragraphs - April 8, 2008
- 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: LPD1/YFL018C.
GO Annotation Information - April 8, 2008
- 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
Post job opportunities through SGD - April 2, 2008
- Periodically SGD is asked to advertise job opportunities. In response, we have created a page in the Community Wiki to allow researchers to post positions available in their labs. This page is linked from the Career Resources page listed in the navigation menu. These pages can be edited by clicking the "edit" tab at the top of the page.
GO Annotation Information - April 1, 2008
- 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
New Summary Paragraphs - March 25, 2008
- 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: CYC1/YJR048W and CYC7/YEL039C.
GO Annotation Information - March 25, 2008
- 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
New Summary Paragraphs - March 18, 2008
- 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
GO Annotation Information - March 18, 2008
- 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
New Summary Paragraphs - March 11, 2008
- 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
GO Annotation Information - March 11, 2008
- 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
GO annotations with IEAs now in SGD's gene_association file - March 10, 2008
- SGD has changed the contents of our file that contains GO annotations. This is a major change as it now includes annotations that are associated with computationally predicted methods. These annotations include computationally predicted annotations to the Gene Ontology created by the Gene Ontology Annotation (GOA) project at EBI, Hinxton UK. The file available from the GO Consortium is called gene_association.sgd
Sequence and Annotation Updates - March 7, 2008
- 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 2008-3-3 and 2008-3-7, the sequence of Chromosome I was updated, affecting GCV3/YAL044C; and the annotation of the LTR YCRCtau1 on Chromosome III was updated.
New Summary Paragraphs - March 4, 2008
- 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: HNM1/YGL077C, PHO85/YPL031C, PMR1/YGL167C, and STE14/YDR410C.
GO Annotation Information - March 4, 2008
- 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
Potential downtime at SGD - February 28, 2008
- SGD may be temporarily unavailable without notice due to an air conditioning problem in our machine room. We will try to keep SGD online. However, it is likely that some SGD pages may be unavailable until this is repaired. You can also view basic yeast data at the SGD Lite database. We apologize in advance for any inconvenience this may cause.
GO Annotation Information - February 26, 2008
- 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
New Summary Paragraphs - February 19, 2008
- 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
GO Annotation Information - February 19, 2008
- 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
Coming Soon: GO annotations with IEAs to be added to SGD's gene_association file on March 8th - February 14, 2008
- On March 8, 2008, SGD will change the contents of our files that contains GO annotations. This is a major change as we will add annotations that are associated with computationally predicted methods. The SGD file currently does not include annotations that are made using the IEA evidence code. These annotations include computationally predicted annotations to the Gene Ontology created by the Gene Ontology Annotation (GOA) project at EBI, Hinxton UK. The file available from the GO Consortium is called gene_association.sgd.
New Summary Paragraphs - February 12, 2008
- 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
GO Annotation Information - February 12, 2008
- 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
- Updates and announcements from SGD are now available via our RSS feed. To read it, you will need to subscribe to our RSS feed using an RSS news reader. Applications that can read our RSS feed include FeedDemon, Firefox, Safari, Mac Mail version 3.1, and Google Reader.
SGD Quarterly Newsletter - January 31, 2008
- 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.
Update on Yeast Biochemical Pathways - January 29, 2008
- All 133 pathways available from the Yeast Biochemical
Pathways have been manually reviewed and referenced. In addition, pathways that have not been documented to occur in yeast have been removed. Curation of pathways unique to S. cerevisiae is ongoing, and we welcome feedback from the research community. The yeast biochemical pathways data are available from SGD's FTP site in two files: the biochemical_pathways.tab file and yeastcyc11.0.tar.200801.gz. These files are updated monthly. In addition, for easy download and accessibility, the yeastcyc11.0 data files are also available for download through the Pathways PGDB Registry for use with the Pathway Tools software.
NAR Database Article - January 8, 2008
- The 2008 Nucleic Acids Research Database issue is now available. This issue includes a paper HTML and PDF by the SGD staff describing the annotation methods used to assign GO annotations at SGD.
