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WormBase: a modern Model Organism Information Resource

Harris, Todd W. and Arnaboldi, Valerio and Chan, Juancarlos and Chen, Wen J. and Cho, Jaehyoung and Grove, Christian A. and Kishore, Ranjana and Lee, Y. N. and Müller, Hans-Michael and Nakamura, Cecilia and Raciti, Daniela and Schindelman, Gary and V. Auken, Kimberly and Wang, Qinghua and Yook, Karen and Sternberg, Paul W. (2020) WormBase: a modern Model Organism Information Resource. Nucleic Acids Research, 48 (D1). D762-D767. ISSN 0305-1048. https://resolver.caltech.edu/CaltechAUTHORS:20191029-103634272

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Abstract

WormBase (https://wormbase.org/) is a mature Model Organism Information Resource supporting researchers using the nematode Caenorhabditis elegans as a model system for studies across a broad range of basic biological processes. Toward this mission, WormBase efforts are arranged in three primary facets: curation, user interface and architecture. In this update, we describe progress in each of these three areas. In particular, we discuss the status of literature curation and recently added data, detail new features of the web interface and options for users wishing to conduct data mining workflows, and discuss our efforts to build a robust and scalable architecture by leveraging commercial cloud offerings. We conclude with a description of WormBase's role as a founding member of the nascent Alliance of Genome Resources.


Item Type:Article
Related URLs:
URLURL TypeDescription
https://doi.org/10.1093/nar/gkz920DOIArticle
ORCID:
AuthorORCID
Harris, Todd W.0000-0003-3406-163X
Arnaboldi, Valerio0000-0002-2563-5374
Chan, Juancarlos0000-0002-7259-8107
Grove, Christian A.0000-0001-9076-6015
Lee, Y. N.0000-0002-8151-7479
Nakamura, Cecilia0000-0002-4689-7314
V. Auken, Kimberly0000-0002-1706-4196
Yook, Karen0000-0002-4457-6787
Sternberg, Paul W.0000-0002-7699-0173
Additional Information:© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Received: 15 September 2019; Revision received: 02 October 2019; Accepted: 07 October 2019; Published: 23 October 2019. The authors wish to thank funding agencies for their ongoing support of WormBase and members of the C. elegans research community whose results form the foundation and purpose of WormBase. Funding: US National Human Genome Research Institute [U24 HG002223]; UK Medical Research Council [MR/S000453/1]; UK Biotechnology and Biological Sciences Research Council [BB/P024602/1]. Funding for open access charge: US National Human Genome Research Institute [U24 HG002223]. Conflict of interest statement. None declared.
Funders:
Funding AgencyGrant Number
NIHU24 HG002223
Medical Research Council (UK)MR/S000453/1
Biotechnology and Biological Sciences Research Council (BBSRC)BB/P024602/1
Issue or Number:D1
Record Number:CaltechAUTHORS:20191029-103634272
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20191029-103634272
Official Citation:Todd W Harris, Valerio Arnaboldi, Scott Cain, Juancarlos Chan, Wen J Chen, Jaehyoung Cho, Paul Davis, Sibyl Gao, Christian A Grove, Ranjana Kishore, Raymond Y N Lee, Hans-Michael Muller, Cecilia Nakamura, Paulo Nuin, Michael Paulini, Daniela Raciti, Faye H Rodgers, Matthew Russell, Gary Schindelman, Kimberly V Auken, Qinghua Wang, Gary Williams, Adam J Wright, Karen Yook, Kevin L Howe, Tim Schedl, Lincoln Stein, Paul W Sternberg, WormBase: a modern Model Organism Information Resource, Nucleic Acids Research, Volume 48, Issue D1, 08 January 2020, Pages D762–D767, https://doi.org/10.1093/nar/gkz920
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:99530
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:29 Oct 2019 18:01
Last Modified:08 Jan 2020 22:43

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