WormBase: better software, richer content
- Creators
-
Schwarz, Erich M.
-
Antoshechkin, Igor
- Bastiani, Carol
- Bieri, Tamberlyn
- Blasiar, Darin
- Canaran, Payan
-
Chan, Juancarlos
- Chen, Nansheng
- Chen, Wen J.
- Davis, Paul
- Fiedler, Tristan J.
- Girard, Lisa
-
Harris, Todd W.
- Kenny, Eimear E.
- Kishore, Ranjana
- Lawson, Dan
-
Lee, Raymond
- Müller, Hans-Michael
-
Nakamura, Cecilia
- Ozersky, Phil
- Petcherski, Andrei
- Rogers, Anthony
- Spooner, Will
- Tuli, Mary Ann
-
Van Auken, Kimberly
- Wang, Daniel
- Durbin, Richard
- Spieth, John
-
Stein, Lincoln D.
-
Sternberg, Paul W.
Abstract
WormBase (http://wormbase.org), the public database for genomics and biology of Caenorhabditis elegans, has been restructured for stronger performance and expanded for richer biological content. Performance was improved by accelerating the loading of central data pages such as the omnibus Gene page, by rationalizing internal data structures and software for greater portability, and by making the Genome Browser highly customizable in how it views and exports genomic subsequences. Arbitrarily complex, user-specified queries are now possible through Textpresso (for all available literature) and through WormMart (for most genomic data). Biological content was enriched by reconciling all available cDNA and expressed sequence tag data with gene predictions, clarifying single nucleotide polymorphism and RNAi sites, and summarizing known functions for most genes studied in this organism.
Additional Information
© The Author 2006. Published by Oxford University Press. All rights reserved. The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. Received September 13, 2005. Revised October 6, 2005. Accepted October 6, 2005. P.W.S. is an investigator with the Howard Hughes Medical Institute. WormBase is supported by grant P41-HG02223 from the US National Human Genome Research Institute, and by the British Medical Research Council. Funding to pay the Open Access publication charges for this article was provided by grant P41-HG02223 from the US National Human Genome Research Institute. Conflict of interest statement. None declared.Attached Files
Published - SCHWnar06.pdf
Files
| Name | Size | Download all |
|---|---|---|
|
md5:c1e944c8c54956ecbb905cfa426a196f
|
68.1 kB | Preview Download |
Additional details
- PMCID
- PMC1347424
- Eprint ID
- 1221
- Resolver ID
- CaltechAUTHORS:SCHWnar06
- Created
-
2006-01-05Created from EPrint's datestamp field
- Updated
-
2023-06-01Created from EPrint's last_modified field