Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes

Methods Mol Biol. 2018:1757:399-470. doi: 10.1007/978-1-4939-7737-6_14.

Abstract

WormBase ( www.wormbase.org ) provides the nematode research community with a centralized database for information pertaining to nematode genes and genomes. As more nematode genome sequences are becoming available and as richer data sets are published, WormBase strives to maintain updated information, displays, and services to facilitate efficient access to and understanding of the knowledge generated by the published nematode genetics literature. This chapter aims to provide an explanation of how to use basic features of WormBase, new features, and some commonly used tools and data queries. Explanations of the curated data and step-by-step instructions of how to access the data via the WormBase website and available data mining tools are provided.

Keywords: Caenorhabditis elegans; Data mining; Genetics; Genomics; Model organism database; Nematodes; Ontologies; User guide.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Caenorhabditis elegans / genetics*
  • Computational Biology / methods
  • Data Mining / methods
  • Databases, Genetic*
  • Epistasis, Genetic
  • Gene Ontology
  • Genes, Helminth
  • Genome, Helminth*
  • Genomics* / methods
  • Humans
  • Phenotype
  • Proteome
  • Search Engine
  • Software
  • Transcriptome
  • User-Computer Interface
  • Web Browser

Substances

  • Proteome