IMG/M 4 version of the integrated metagenome comparative analysis system

Markowitz, Victor M.; Chen, I-Min A.; Chu, Ken; Szeto, Ernest; Palaniappan, Krishna; Pillay, Manoj; Ratner, Anna; Huang, Jinghua; Pagani, Ioanna; Tringe, Susannah; Huntemann, Marcel; Billis, Konstantinos; Varghese, Neha; Tennessen, Kristin; Mavromatis, Konstantinos; Pati, Amrita; Ivanova, Natalia N.; Kyrpides, Nikos C.

doi:10.1093/nar/gkt919

IMG/M 4 version of the integrated metagenome comparative analysis system

Journal Article · Wed Oct 16 00:00:00 EDT 2013 · Nucleic Acids Research

DOI:https://doi.org/10.1093/nar/gkt919· OSTI ID:1625530

Markowitz, Victor M. ^[1]; Chen, I-Min A. ^[2]; Chu, Ken ^[2]; Szeto, Ernest ^[2]; Palaniappan, Krishna ^[2]; Pillay, Manoj ^[2]; Ratner, Anna ^[2]; Huang, Jinghua ^[2]; Pagani, Ioanna ^[3]; Tringe, Susannah ^[3]; Huntemann, Marcel ^[3]; Billis, Konstantinos ^[3]; Varghese, Neha ^[3]; Tennessen, Kristin ^[3]; Mavromatis, Konstantinos ^[3]; Pati, Amrita ^[3]; Ivanova, Natalia N. ^[3]; Kyrpides, Nikos C. ^[3]

Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Computational Research Division. Biological Data Management and Technology Center; DOE/OSTI
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Computational Research Division. Biological Data Management and Technology Center
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States). Microbial Genome and Metagenome Program

IMG/M (http://img.jgi.doe.gov/m) provides support for comparative analysis of microbial community aggregate genomes (metagenomes) in the context of a comprehensive set of reference genomes from all three domains of life, as well as plasmids, viruses and genome fragments. IMG/M’s data content and analytical tools have expanded continuously since its first version was released in 2007. Since the last report published in the 2012 NAR Database Issue, IMG/M’s database architecture, annotation and data integration pipelines and analysis tools have been extended to cope with the rapid growth in the number and size of metagenome data sets handled by the system. IMG/M data marts provide support for the analysis of publicly available genomes, expert review of metagenome annotations (IMG/M ER: http://img.jgi.doe.gov/mer) and Human Microbiome Project (HMP)-specific metagenome samples (IMG/M HMP: http://img.jgi.doe.gov/ imgm_hmp).

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1625530

Journal Information:: Nucleic Acids Research, Journal Name: Nucleic Acids Research Journal Issue: D1 Vol. 42; ISSN 0305-1048

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

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