An experimental metagenome data management and analysis system.
The application of shotgun sequencing to environmental samples has revealed a new universe of microbial community genomes (metagenomes) involving previously uncultured organisms. Metagenome analysis, which is expected to provide a comprehensive picture of the gene functions and metabolic capacity for microbial communities, needs to be conducted in the context of a comprehensive data management and analysis system. We present in this paper IMG/M, an experimental metagenome data management and analysis system that is based on the Integrated Microbial Genomes (IMG) system. IMG/M provides tools and viewers for analyzing both metagenomes and isolate genomes individually or in a comparative context. IMG/M is available at http://img.jgi.doe.gov/m.
Markowitz
Victor M
VM
Biological Data Management and Technology Center, Lawrence Berkeley National Lab, USA. vmmarkowitz@lbl.gov
Ivanova
Natalia
N
Palaniappan
Krishna
K
Szeto
Ernest
E
Korzeniewski
Frank
F
Lykidis
Athanasios
A
Anderson
Iain
I
Mavromatis
Konstantinos
K
Mavrommatis
Konstantinos
K
Kunin
Victor
V
Garcia Martin
Hector
H
Dubchak
Inna
I
Hugenholtz
Phil
P
Kyrpides
Nikos C
NC
D018407:Bacterial Physiological Phenomena; D001426:Bacterial Proteins / Q000502:physiology*; D003628:Database Management Systems; D030541:Databases, Genetic; D016680:Genome, Bacterial / Q000235:genetics*; D016247:Information Storage and Retrieval / Q000379:methods; D008954:Models, Biological; D020543:Proteome / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology; D014584:User-Computer Interface
D001426:Bacterial Proteins; D020543:Proteome