An extensible application for assembling annotation for genomic data

Jianhua Zhang; Vincent Carey; Robert Gentleman

doi:10.1093/bioinformatics/19.1.155

An extensible application for assembling annotation for genomic data

Bioinformatics. 2003 Jan;19(1):155-6. doi: 10.1093/bioinformatics/19.1.155.

Authors

Jianhua Zhang¹, Vincent Carey, Robert Gentleman

Affiliation

¹ Department of Biostatistical Science, Dana-Farber Cancer Institute, Harvard School of Public Health, and Channing Laboratory, Boston, MA, USA. jzhang@jimmy.harvard.edu

PMID: 12499308
DOI: 10.1093/bioinformatics/19.1.155

Abstract

Summary: AnnBuilder is an R package for assembling genomic annotation data. The system currently provides parsers to process annotation data from LocusLink, Gene Ontology Consortium, and Human Gene Project and can be extended to new data sources via user defined parsers. AnnBuilder differs from other existing systems in that it provides users with unlimited ability to assemble data from user selected sources. The products of AnnBuilder are files in XML format that can be easily used by different systems.

Availability: (http://www.bioconductor.org). Open source.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Database Management Systems*
Databases, Genetic
Documentation / methods*
Genome*
Hypermedia
Information Storage and Retrieval / methods*
Sequence Analysis, DNA / methods
Software*
User-Computer Interface