RAST specifications

Information


Unique identifier OMICS_04222
Name Rapid Annotation using Subsystem Technology
Alternative name RAST Server
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Registration required Yes
Maintained Yes

Taxon


  • Eubacteria

Maintainer


  • person_outline Veronika Vonstein <>

RAST articles

RAST citations

 (17)
2018
PMCID: 5787071

[…] a window of 10 bp) was 25 and the maximum length of homopolymers was 8 bp; duplicate reads were removed., quality-filtered rna sequences were processed and annotated using the mg-rast (meta genome rapid annotation using subsystem technology; v4.0) server at the argonne national laboratories2 (keegan et al., 2016). artificial duplicate reads were removed (cox et al., 2010) and host reads mapped […]

2018
PMCID: 5764946

[…] contig was 455,093 bp, and the shortest contig was 2,842 bp. the assembly produced an estimated genome of approximately 2.36 mb, with 40.7% g+c content. an initial gene inspection was made with the rapid annotation using subsystem technology (rast) pipeline (9). finally, automatic gene prediction and annotation were performed using the ncbi prokaryotic genome annotation pipeline […]

2017
PMCID: 5608340

[…] after separation on a 1% agarose gel, were compared with unmethylated dna controls., comparative bioinformatic analyses of p. intermedia atcc-25611f and p. intermedia 17f was performed using the rapid annotation using subsystem technology, rast server version 2.0 [21]. homology searches were performed using the basic local alignment search tool (blastp and blastn) through the national centre […]

2017
PMCID: 5404519

[…] of the cultures was confirmed via etest prior to genomic dna extraction., de novo draft genomes were assembled using clc genomics workbench with default parameters (table s1) and annotated using rapid annotation using subsystem technology (48). the taxonomic identification for the parental strains were confirmed using gyrb typing (49). reads from the resistant strains were mapped […]

2017
PMCID: 5349653

[…] 28 genomes from different mycobacterium species were downloaded from the ncbi database for comparative and pan-genome analysis (table 1). for consistency, the 28 genomes were re-annotated using the rapid annotation using subsystem technology (rast) pipeline [9]. the predicted protein sequences of the 28 strains from rast were used pan-genome analysis using pgap (pan-genome analysis pipeline) […]

RAST institution(s)
Fellowship for Interpretation of Genomes, Burr Ridge, IL, USA; Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL, USA; Computation Institute, University of Chicago, Chicago, IL, USA; Department of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA; Department of Computer Science, San Diego State University, San Diego, CA, USA; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA, USA; Computing, Environment and Life Sciences, Argonne National Laboratory, Argonne, IL, USA; Department of Computer Science, University of Chicago, Chicago, IL, USA
RAST funding source(s)
Supported by United States National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Service [HHSN272200900040C], the National Science Foundation Grant [DBI-0850546], the Office of Science, Office of Biological and Environmental Research, of the United States Department of Energy [DE-AC02-06CH11357] and United States National Science Foundation Grant [DBI0850356] from the NSF Division of Biological Infrastructure (the PhAnToMe project).

RAST reviews

 (3)
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Korin Albert

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Web
I really like RAST...it's extremely easy to upload freshly-assembled genomes and get the quick and dirty info on them. Anyone could use this, including people with no genomics experience. It also serves as a great way to keep my genomics data on hand at all times from any computer. My only big issue is that their public genome database is too limited for my purposes (bifidobacteria) so their "identify related organisms" tool is useless to me. I have to upload most of the reference genomes I need myself.

Amr Galal

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Web
the tool is very useful for microbial and archeal genomes, easy, and good to save results

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