February 15, 2011
SGD’s Batch Download tool will be retired soon, because all of its functions and many more can now be accomplished via YeastMine, which offers flexible queries and fast retrieval of multiple datatypes from SGD for a custom list of genes or proteins. Please contact us if you have any concerns.
Categories: Website changes
February 15, 2011
YeastMine, a powerful data search and retrieval tool, has been upgraded to InterMine version 0.95. This software update includes many new features, improvements and bug fixes. Key new features include a completely redesigned homepage, a more powerful multifaceted keyword search and template ranking by frequency of search. YeastMine queries multiple datatypes: chromosomal features, protein features, GO annotations, phenotypes, interaction data and curated literature. YeastMine will soon replace several search tools at SGD. Please explore its powerful query options and send us feedback.
YeastMine was created through an NIH funded collaboration between InterMine, the Rat Genome Database (RGD), and the Zebrafish Model Organism Database (ZFIN) to provide interoperability between model organism databases.
Categories: Website changes
February 02, 2011
The budding yeast Saccharomyces cerevisiae reference genome sequence was updated today. This is the first major update of the S288C reference sequence since 1996, and 194 proteins have changed as a result of this update. The new version, called “S288C 2010”, was provided by Fred Dietrich of Duke University, and was determined using new high fidelity sequencing from an individual yeast colony. This update increases accuracy by using modern sequencing technology (Illumina HiSeq) and provides a valuable resource that will serve as the reference point from which to expand our annotation of additional S. cerevisiae strains. In the very near future, SGD will provide researchers with the genome sequences for several commonly used laboratory strains. This is a very exciting time. We will soon have the sequence of all major laboratory strains and hundreds of wild and commercial isolates. Comparative genomics with so many well-studied S. cerevisiae strains and closely-related species will enhance the awesome power of yeast genomics.