WormBase: a modern Model Organism Information Resource

Creators: Harris, Todd W.; Arnaboldi, Valerio; Chan, Juancarlos; Chen, Wen J.; Cho, Jaehyoung; Grove, Christian A.; Kishore, Ranjana; Lee, Y. N.; Müller, Hans-Michael; Nakamura, Cecilia; Raciti, Daniela; Schindelman, Gary; V. Auken, Kimberly; Wang, Qinghua; Yook, Karen; Sternberg, Paul W.

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.

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.

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