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Items: 12


The MG-RAST metagenomics database and portal in 2015.

Wilke A, Bischof J, Gerlach W, Glass E, Harrison T, Keegan KP, Paczian T, Trimble WL, Bagchi S, Grama A, Chaterji S, Meyer F.

Nucleic Acids Res. 2016 Jan 4;44(D1):D590-4. doi: 10.1093/nar/gkv1322. Epub 2015 Dec 9.


The complete genome sequence for putative Hâ‚‚- and S-oxidizer Candidatus Sulfuricurvum sp., assembled de novo from an aquifer-derived metagenome.

Handley KM, Bartels D, O'Loughlin EJ, Williams KH, Trimble WL, Skinner K, Gilbert JA, Desai N, Glass EM, Paczian T, Wilke A, Antonopoulos D, Kemner KM, Meyer F.

Environ Microbiol. 2014 Nov;16(11):3443-62. doi: 10.1111/1462-2920.12453. Epub 2014 Apr 21.


A metagenomics portal for a democratized sequencing world.

Wilke A, Glass EM, Bartels D, Bischof J, Braithwaite D, D'Souza M, Gerlach W, Harrison T, Keegan K, Matthews H, Kottmann R, Paczian T, Tang W, Trimble WL, Yilmaz P, Wilkening J, Desai N, Meyer F.

Methods Enzymol. 2013;531:487-523. doi: 10.1016/B978-0-12-407863-5.00022-8.


Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes.

Williams D, Trimble WL, Shilts M, Meyer F, Ochman H.

BMC Genomics. 2013 Aug 8;14:537. doi: 10.1186/1471-2164-14-537.


Draft genome sequence of Agrobacterium albertimagni strain AOL15.

Trimble WL, Phung le T, Meyer F, Gilbert JA, Silver S.

J Bacteriol. 2012 Dec;194(24):6986-7. doi: 10.1128/JB.01912-12.


Draft genome sequence of Achromobacter piechaudii strain HLE.

Trimble WL, Phung le T, Meyer F, Silver S, Gilbert JA.

J Bacteriol. 2012 Nov;194(22):6355. doi: 10.1128/JB.01660-12.


Intestinal tissues induce an SNP mutation in Pseudomonas aeruginosa that enhances its virulence: possible role in anastomotic leak.

Olivas AD, Shogan BD, Valuckaite V, Zaborin A, Belogortseva N, Musch M, Meyer F, Trimble WL, An G, Gilbert J, Zaborina O, Alverdy JC.

PLoS One. 2012;7(8):e44326. doi: 10.1371/journal.pone.0044326. Epub 2012 Aug 31.


Draft genome sequence of Alcaligenes faecalis subsp. faecalis NCIB 8687 (CCUG 2071).

Phung le T, Trimble WL, Meyer F, Gilbert JA, Silver S.

J Bacteriol. 2012 Sep;194(18):5153. doi: 10.1128/JB.01185-12.


Short-read reading-frame predictors are not created equal: sequence error causes loss of signal.

Trimble WL, Keegan KP, D'Souza M, Wilke A, Wilkening J, Gilbert J, Meyer F.

BMC Bioinformatics. 2012 Jul 28;13:183. doi: 10.1186/1471-2105-13-183.


A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE.

Keegan KP, Trimble WL, Wilkening J, Wilke A, Harrison T, D'Souza M, Meyer F.

PLoS Comput Biol. 2012;8(6):e1002541. doi: 10.1371/journal.pcbi.1002541. Epub 2012 Jun 7.


Draft genome of halomonas species strain GFAJ-1 (ATCC BAA-2256).

Phung le T, Silver S, Trimble WL, Gilbert JA.

J Bacteriol. 2012 Apr;194(7):1835-6. doi: 10.1128/JB.06664-11.

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