SGD Quarterly Newsletter, Summer 2009

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About this newsletter:

This is the August 2009 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 -

SGD publication describes S. cerevisiae GO annotation

A review describing the Gene Ontology (GO) annotations available from SGD as well as their use by the scientific community is now published in Trends in Microbiology. This review, "Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns", is part of a special issue which highlights uses of GO in microbiological research.

SGD links to Genevestigator

A link to Genevestigator, a reference expression database and meta-analysis system, has been added to the Functional Analysis pull-down menu on Locus Summary pages for all chromosomal features. The link provides direct access to the meta-profile mutation tool expression summary, which displays the relative expression level of the chromosomal feature of interest in response to mutations or other genetic modifications in the genome. This provides a tabbed entry point to view expression summaries created using other Meta-Profile Analysis tools. There are currently 1,794 yeast arrays available for query at Genevestigator. Thanks to Philip Zimmermann of Nebion for helping set up these links.

iProto Yeast and Scitable

The External Links page is a list of resources relevent to yeast biology, usually requested or suggested by our users. Links to two new resources have been added to this page.

  • iProto Yeast is an iPhone application containing proteome information for several different Saccharomyces and Schizosaccharomyces strains.
  • Scitable is a free library providing overviews of key science concepts, with a focus on genetics, compiled by the Nature Publishing Group.

Sequence and Annotation Updates

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 2009-05-04 and 2009-05-08, the annotation of ORF RDH54/YBR073W was changed, 4 new ncRNAs were annotated on Chromosome VI, and a total of 63 additional ARS elements were annotated on Chromosomes II, IV, VII, VIII, IX, XI, XII, XIII, XIV, XV, and XVI.

New Gene Summary Paragraphs

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 last quarter new summary paragraphs have been added to their respective Locus Summary pages for five features. Genes with new summary paragraphs are reported weekly on SGD's "What's New" page:

Community News: Positions in yeast labs

New listings have recently been added to the Positions in yeast labs page (newest at the bottom of the page):

Upcoming Conferences and Meetings

Information on registration and abstract deadlines for the following conferences is available at:

  • Boston Area Yeast Meeting
Cambridge, MA
Every third Thursday of the month
  • Yeast Cell Biology
Cold Spring Harbor Laboratory
August 11 - 15, 2009
Abstract Deadline: May 22, 2009
  • 27th International Specialized Symposium on Yeasts (ISSY)
Pasteur's legacy: Yeasts for health and biotechnologies
Institut Pasteur, Paris, France
August 26 - 29, 2009
  • 27th Small Meeting on Yeast Transport and Energetics (SMYTE)
Duinse Polders, Blankenberge, Belgium
September 4 - 8, 2009
  • EMBO Conference on Comparative Genomics of Eukaryotic Microorganisms
San Feliu de Guixols, Spain
October 17-22, 2009

asterisks indicate attendance by SGD.*

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