title: IMG/M 4 version of the integrated metagenome comparative analysis system.
abstract: 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 copewith 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).
authors.affiliation: Biological Data Management and Technology Center, Computational Research Division Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, 94720 USA and Microbial Genome and Metagenome Program, Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598 USA.
authors.forename: Victor M
authors.initials: VM
authors.lastname: Markowitz
authors.forename: I-Min A
authors.initials: IM
authors.lastname: Chen
authors.forename: Ken
authors.initials: K
authors.lastname: Chu
authors.forename: Ernest
authors.initials: E
authors.lastname: Szeto
authors.forename: Krishna
authors.initials: K
authors.lastname: Palaniappan
authors.forename: Manoj
authors.initials: M
authors.lastname: Pillay
authors.forename: Anna
authors.initials: A
authors.lastname: Ratner
authors.forename: Jinghua
authors.initials: J
authors.lastname: Huang
authors.forename: Ioanna
authors.initials: I
authors.lastname: Pagani
authors.forename: Susannah
authors.initials: S
authors.lastname: Tringe
authors.forename: Marcel
authors.initials: M
authors.lastname: Huntemann
authors.forename: Konstantinos
authors.initials: K
authors.lastname: Billis
authors.forename: Neha
authors.initials: N
authors.lastname: Varghese
authors.forename: Kristin
authors.initials: K
authors.lastname: Tennessen
authors.forename: Konstantinos
authors.initials: K
authors.lastname: Mavromatis
authors.forename: Amrita
authors.initials: A
authors.lastname: Pati
authors.forename: Natalia N
authors.initials: NN
authors.lastname: Ivanova
authors.forename: Nikos C
authors.initials: NC
authors.lastname: Kyrpides
mesh_terms: D030541:Databases, Genetic; D020869:Gene Expression Profiling; D020745:Genome, Archaeal; D016680:Genome, Bacterial; D016679:Genome, Viral; D020407:Internet; D054892:Metagenome; D056186:Metagenomics / Q000592:standards; D010957:Plasmids / Q000235:genetics; D012015:Reference Standards; D020539:Sequence Analysis, Protein; D012984:Software; D018511:Systems Integration