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WormBase 2014: new views of curated biology

Harris, Todd W. and Chan, Juancarlos and Chen, Wen J. and Done, James and Grove, Christian and Kishore, Ranjana and Lee, Raymond and Li, Yuling and Müller, Hans-Michael and Nakamura, Cecilia and Raciti, Daniela and Schindelman, Gary and Van Auken, Kimberly and Wang, Daniel and Wang, Xiaodong and Yook, Karen and Sternberg, Paul W. (2014) WormBase 2014: new views of curated biology. Nucleic Acids Research, 42 . D789-D793. ISSN 0305-1048. PMCID PMC3965043. https://resolver.caltech.edu/CaltechAUTHORS:20131112-152912465

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Abstract

WormBase (http://www.wormbase.org/) is a highly curated resource dedicated to supporting research using the model organism Caenorhabditis elegans. With an electronic history predating the World Wide Web, WormBase contains information ranging from the sequence and phenotype of individual alleles to genome-wide studies generated using next-generation sequencing technologies. In recent years, we have expanded the contents to include data on additional nematodes of agricultural and medical significance, bringing the knowledge of C. elegans to bear on these systems and providing support for underserved research communities. Manual curation of the primary literature remains a central focus of the WormBase project, providing users with reliable, up-to-date and highly cross-linked information. In this update, we describe efforts to organize the original atomized and highly contextualized curated data into integrated syntheses of discrete biological topics. Next, we discuss our experiences coping with the vast increase in available genome sequences made possible through next-generation sequencing platforms. Finally, we describe some of the features and tools of the new WormBase Web site that help users better find and explore data of interest.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1093/nar/gkt1063DOIArticle
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3965043/PubMed CentralArticle
ORCID:
AuthorORCID
Harris, Todd W.0000-0003-3406-163X
Chan, Juancarlos0000-0002-7259-8107
Grove, Christian0000-0001-9076-6015
Lee, Raymond0000-0002-8151-7479
Nakamura, Cecilia0000-0002-4689-7314
Van Auken, Kimberly0000-0002-1706-4196
Yook, Karen0000-0002-4457-6787
Sternberg, Paul W.0000-0002-7699-0173
Additional Information:© 2013 The Author(s). Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Received October 10, 2013; Accepted October 12, 2013. First published online: November 4, 2013. The US National Human Genome Research Institute [U41-HG002223] to WormBase and British Medical Research Council [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 [U41-HG002223]. Conflict of interest statement. None declared.
Funders:
Funding AgencyGrant Number
NIHU41-HG002223
Medical Research Council (UK)G070119
PubMed Central ID:PMC3965043
Record Number:CaltechAUTHORS:20131112-152912465
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20131112-152912465
Official Citation:Todd W. Harris, Joachim Baran, Tamberlyn Bieri, Abigail Cabunoc, Juancarlos Chan, Wen J. Chen, Paul Davis, James Done, Christian Grove, Kevin Howe, Ranjana Kishore, Raymond Lee, Yuling Li, Hans-Michael Muller, Cecilia Nakamura, Philip Ozersky, Michael Paulini, Daniela Raciti, Gary Schindelman, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, J. D. Wong, Karen Yook, Tim Schedl, Jonathan Hodgkin, Matthew Berriman, Paul Kersey, John Spieth, Lincoln Stein, and Paul W. Sternberg WormBase 2014: new views of curated biology Nucl. Acids Res. first published online November 4, 2013 doi:10.1093/nar/gkt1063
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:42405
Collection:CaltechAUTHORS
Deposited By: Ruth Sustaita
Deposited On:13 Nov 2013 16:51
Last Modified:29 Oct 2019 19:34

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