WormBase: methods for data mining and comparative genomics

Harris, T. W., Stein, L. D. (2006) WormBase: methods for data mining and comparative genomics. Methods Mol Biol, 351. pp. 31-50. ISSN 1940-6029 (Electronic)1064-3745 (Linking)

URL: https://www.ncbi.nlm.nih.gov/pubmed/16988424
DOI: 10.1385/1-59745-151-7:31

Abstract

WormBase is a comprehensive repository for information on Caenorhabditis elegans and related nematodes. Although the primary web-based interface of WormBase (http:// www.wormbase.org/) is familiar to most C. elegans researchers, WormBase also offers powerful data-mining features for addressing questions of comparative genomics, genome structure, and evolution. In this chapter, we focus on data mining at WormBase through the use of flexible web interfaces, custom queries, and scripts. The intended audience includes users wishing to query the database beyond the confines of the web interface or fetch data en masse. No knowledge of programming is necessary or assumed, although users with intermediate skills in the Perl scripting language will be able to utilize additional data-mining approaches.

Item Type: Paper
Uncontrolled Keywords: Animals Caenorhabditis elegans genetics Databases Genetic Genes Helminth genetics Genomics methods Internet Programming Languages User Computer Interface WormBase C. elegans AceDB AcePerl bioinformatics data mining comparative genomics
Subjects: organism description > animal > C elegans
bioinformatics > genomics and proteomics > databases > database construction
bioinformatics > genomics and proteomics > databases > database optimization
bioinformatics > genomics and proteomics > databases > database search and retrieval
bioinformatics > genomics and proteomics > databases
bioinformatics > genomics and proteomics > computers > computer software
CSHL Authors:
Communities: CSHL labs > Stein lab
Depositing User: CSHL Librarian
Date: 2006
Date Deposited: 15 Dec 2011 15:51
Last Modified: 13 Apr 2018 21:14
Related URLs:
URI: http://repository.cshl.edu/id/eprint/22811

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