WormBase in 2022-data, processes, and tools for analyzing Caenorhabditis elegans

Paul Davis, Magdalena Zarowiecki, Valerio Arnaboldi, Andrés Becerra, Scott Cain, Juancarlos Chan, Wen J. Chen, Jaehyoung Cho, Eduardo da Veiga Beltrame, Stavros Diamantakis, Sibyl Gao, Dionysis Grigoriadis, Christian A. Grove, Todd W. Harris, Ranjana Kishore, Tuan Le, Raymond Y.N. Lee, Manuel Luypaert, Hans Michael Müller, Cecilia NakamuraPaulo Nuin, Michael Paulini, Mark Quinton-Tulloch, Daniela Raciti, Faye H. Rodgers, Matthew Russell, Gary Schindelman, Archana Singh, Tim Stickland, Kimberly Van Auken, Qinghua Wang, Gary Williams, Adam J. Wright, Karen Yook, Matt Berriman, Kevin L. Howe, Tim Schedl, Lincoln Stein, Paul W. Sternberg

Research output: Contribution to journalArticlepeer-review

11 Scopus citations

Abstract

WormBase (www.wormbase.org) is the central repository for the genetics and genomics of the nematode Caenorhabditis elegans. We provide the research community with data and tools to facilitate the use of C. elegans and related nematodes as model organisms for studying human health, development, and many aspects of fundamental biology. Throughout our 22-year history, we have continued to evolve to reflect progress and innovation in the science and technologies involved in the study of C. elegans. We strive to incorporate new data types and richer data sets, and to provide integrated displays and services that avail the knowledge generated by the published nematode genetics literature. Here, we provide a broad overview of the current state of WormBase in terms of data type, curation workflows, analysis, and tools, including exciting new advances for analysis of single-cell data, text mining and visualization, and the new community collaboration forum. Concurrently, we continue the integration and harmonization of infrastructure, processes, and tools with the Alliance of Genome Resources, of which WormBase is a founding member.

Original languageEnglish
Article numberiyac003
JournalGenetics
Volume220
Issue number4
DOIs
StatePublished - Apr 2022

Keywords

  • Caenorhabditis elegans
  • annotation
  • caenorhabditis
  • community
  • curation
  • data
  • database
  • gene
  • health
  • human
  • literature
  • mining
  • model
  • nematode
  • platform
  • research
  • resource
  • software
  • tools

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