title: The comprehensive microbial resource.
abstract: The Comprehensive Microbial Resource or CMR (http://cmr.jcvi.org) provides a web-based central resource for the display, search and analysis of the sequence and annotation for complete and publicly available bacterial and archaeal genomes. In addition to displaying the original annotation from GenBank, the CMR makes available secondary automated structural and functional annotation across all genomes to provide consistent data types necessary for effective mining of genomic data. Precomputed homology searches are stored to allow meaningful genome comparisons. The CMR supplies users with over 50 different tools to utilize the sequence and annotation data across one or more of the 571 currently available genomes. At the gene level users can view the gene annotation and underlying evidence. Genome level information includes whole genome graphical displays, biochemical pathway maps and genome summary data. Comparative tools display analysis between genomes with homology and genome alignment tools, and searches across the accessions, annotation, and evidence assigned to all genes/genomes are available. The data and tools on the CMR aid genomic research and analysis, and the CMR is included in over 200 scientific publications. The code underlying the CMR website and the CMR database are freely available for download with no license restrictions.
authors.affiliation: J Craig Venter Institute, Rockville, MD 20850, USA. tanjad@jcvi.org
authors.forename: Tanja
authors.initials: T
authors.lastname: Davidsen
authors.forename: Erin
authors.initials: E
authors.lastname: Beck
authors.forename: Anuradha
authors.initials: A
authors.lastname: Ganapathy
authors.forename: Robert
authors.initials: R
authors.lastname: Montgomery
authors.forename: Nikhat
authors.initials: N
authors.lastname: Zafar
authors.forename: Qi
authors.initials: Q
authors.lastname: Yang
authors.forename: Ramana
authors.initials: R
authors.lastname: Madupu
authors.forename: Phil
authors.initials: P
authors.lastname: Goetz
authors.forename: Kevin
authors.initials: K
authors.lastname: Galinsky
authors.forename: Owen
authors.initials: O
authors.lastname: White
authors.forename: Granger
authors.initials: G
authors.lastname: Sutton
mesh_terms: D001419:Bacteria / Q000235:genetics*; D019295:Computational Biology / Q000379:methods* / Q000639:trends; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D005798:Genes, Bacterial; D016680:Genome, Bacterial; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D017434:Protein Structure, Tertiary; D012984:Software