WormBase 2012: more genomes, more data, new website
- Creators
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Yook, Karen
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Chan, Juancarlos
- Chen, Wen J.
- Fang, Ruihua
- Ganesan, Uma
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Grove, Christian
- Kadam, Snehalata
- Kishore, Ranjana
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Lee, Raymond
- Li, Yuling
- Muller, Hans-Michael
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Nakamura, Cecilia
- Rangarajan, Arun
- Schindelman, Gary
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Schwarz, Erich M.
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Van Auken, Kimberly
- Wang, Xiaodong
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Sternberg, Paul W.
- Raciti, Daniela
- Wang, Daniel
Abstract
Since its release in 2000, WormBase (http://www.wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential to the broader biomedical and agricultural research fields. To enhance the rate of curation, we have automated the identification of key data in the scientific literature and use similar methodology for data extraction. To ease access to the data, we are collaborating with journals to link entities in research publications to their report pages at WormBase. To facilitate discovery, we have added new views of the data, integrated large-scale datasets and expanded descriptions of models for human disease. Finally, we have introduced a dramatic overhaul of the WormBase website for public beta testing. Designed to balance complexity and usability, the new site is species-agnostic, highly customizable, and interactive. Casual users and developers alike will be able to leverage the public RESTful application programming interface (API) to generate custom data mining solutions and extensions to the site. We report on the growth of our database and on our work in keeping pace with the growing demand for data, efforts to anticipate the requirements of users and new collaborations with the larger science community.
Additional Information
© 2011 The Author(s). This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. Received September 14, 2011; Accepted October 12, 2011. First published online: November 8, 2011. This work is supported by the US National Institutes of Health (Grant no. P41 HG02223); US National Human Genome Research Institute (Grant no. P41-HG02223) to WormBase; and British Medical Research Council (Grant no. G070119) to WormBase; P.W.S. is an investigator with the Howard Hughes Medical Institute. Funding for open access charge: US National Human Genome Research Institute (Grant no. P41-HG02223). Conflict of interest statement. None declared.Attached Files
Published - Yook2012p17053Nucleic_Acids_Res.pdf
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Additional details
- PMCID
- PMC3245152
- Eprint ID
- 29264
- Resolver ID
- CaltechAUTHORS:20120214-071150526
- NIH
- P41 HG02223
- Medical Research Council (UK)
- G070119
- NIH
- P41-HG02223
- Created
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2012-02-14Created from EPrint's datestamp field
- Updated
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2021-11-09Created from EPrint's last_modified field