Microbedb: A locally maintainable database of microbial genomic sequences

Morgan G.I. Langille; Matthew R. Laird; William W.L. Hsiao; Terry A. Chiu; Jonathan A. Eisen; Fiona S.L. Brinkman

doi:10.1093/bioinformatics/bts273

Microbedb: A locally maintainable database of microbial genomic sequences

Morgan G.I. Langille, Matthew R. Laird, William W.L. Hsiao, Terry A. Chiu, Jonathan A. Eisen, Fiona S.L. Brinkman

Medicine

Research output: Contribution to journal › Article › peer-review

14 Citations (Scopus)

Abstract

Analysis of microbial genomes often requires the general organization and comparison of tens to thousands of genomes both from public repositories and unpublished sources. MicrobeDB provides a foundation for such projects by the automation of downloading published, completed bacterial and archaeal genomes from key sources, parsing annotations of all genomes (both public and private) into a local database, and allowing interaction with the database through an easy to use programming interface. MicrobeDB creates a simple to use, easy to maintain, centralized local resource for various large-scale comparative genomic analyses and a back-end for future microbial application design.

Original language	English
Article number	bts273
Pages (from-to)	1947-1948
Number of pages	2
Journal	Bioinformatics
Volume	28
Issue number	14
DOIs	https://doi.org/10.1093/bioinformatics/bts273
Publication status	Published - Jul 2012

Bibliographical note

Funding Information:
Funding: This work was supported by the Canadian Institutes of Health Research, Michael Smith Foundation for Health Research, Genome Canada, and Gordon and Betty Moore Foundation.

ASJC Scopus Subject Areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/bts273

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Langille, M. G. I., Laird, M. R., Hsiao, W. W. L., Chiu, T. A., Eisen, J. A., & Brinkman, F. S. L. (2012). Microbedb: A locally maintainable database of microbial genomic sequences. Bioinformatics, 28(14), 1947-1948. Article bts273. https://doi.org/10.1093/bioinformatics/bts273

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Microbedb: A locally maintainable database of microbial genomic sequences

Abstract

Bibliographical note

ASJC Scopus Subject Areas

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