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SGD Locus Pages: Efficient Access to Saccharomyces Genome Database Information

Explore the organization and presentation of biological data in SGD Locus pages, designed for user-friendliness and centralized information display. Learn how curators review literature to update gene annotations and GO terms, ensuring comprehensive data collection and logical data organization. Stay informed with new data on Locus pages while maintaining a familiar layout. Contact SGD staff for more information at yeast-curator@genome.stanford.edu.

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SGD Locus Pages: Efficient Access to Saccharomyces Genome Database Information

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  1. Organization and Presentation of Biological Information in the Saccharomyces Genome Database (SGD) Maria Costanzo, Ph.D. Saccharomyces Genome Database Department of Genetics • Stanford University School of Medicine

  2. The Locus page is SGD’s basic unit • Information from the literature is sorted to the appropriate Locus pages. • Principles of Locus page design: • user-friendly, clear and logical navigation paths • consistent format that becomes familiar to users • centralized data: all information relevant to each locus is displayed on or linked to its Locus page

  3. Short tour of a typical Locus Page http://db.yeastgenome.org/cgi-bin/SGD/locus.pl?locus=his7

  4. How do users access Locus pages? • SGD Quick Search takes text as input, searches 6 fields • Chromosomal Features Search allows users to combine multiple criteria http://db.yeastgenome.org/cgi-bin/SGD/search/featureSearch • GO Term pages list all genes annotated to a term http://db.yeastgenome.org/cgi-bin/SGD/GO/go.pl?goid=5739 • Many other avenues

  5. GO term page

  6. Brief outline of the curation process • Literature loaded automatically • Curators review literature associations to genes • Curators read abstracts, select Literature Guide topics • Based on content of abstracts, curators may decide to update GO annotations, Description, other information on Locus page. In this case, they often read the full text. • Literature curation often leads to addition of new terms to the Gene Ontology, or to revisions of existing terms

  7. Summary • We aim to: • collect all information relevant to a locus • organize and display it in a logical, easily understandable fashion • change the content of the Locus page as frequently as necessary to accommodate new types of data, while preserving the familiar look and layout of the page

  8. SGD staff E-mail: yeast-curator@genome.stanford.edu

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