Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes.

Journal Article · Fri Jan 01 00:00:00 EST 2010 · Cold Spring Harbor Protocols

DOI:https://doi.org/10.1101/pdb.prot5368· OSTI ID:1035447

Glass, E M; Wilkening, J; Wilke, A; Antonopoulos, D; Meyer, F ^[1]

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1. Mathematics and Computer Science

Shotgun metagenomics creates millions of fragments of short DNA reads, which are meaningless unless analyzed appropriately. The Metagenomics RAST server (MG-RAST) is a web-based, open source system that offers a unique suite of tools for analyzing these data sets. After de-replication and quality control, fragments are mapped against a comprehensive nonredundant database (NR). Phylogenetic and metabolic reconstructions are computed from the set of hits against the NR. The resulting data are made available for browsing, download, and most importantly, comparison against a comprehensive collection of public metagenomes. A submitted metagenome is visible only to the user, unless the user makes it public or shares with other registered users. Public metagenomes are available to all.

• Research Organization: Argonne National Lab. (ANL), Argonne, IL (United States)
• Sponsoring Organization: USDOE Office of Science (SC); National Institutes of Health (NIH)
• DOE Contract Number: DE-AC02-06CH11357
• OSTI ID: 1035447
• Report Number(s): ANL/MCS/JA-65695; TRN: US201204%%618
• Journal Information: Cold Spring Harbor Protocols, Vol. 2010, Issue 1; ISSN 1940-3402
• Country of Publication: United States
• Language: ENGLISH

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
60 APPLIED LIFE SCIENCES
DNA
QUALITY CONTROL
DNA SEQUENCING