Wilke A - Search Results

1

MG-RAST version 4-lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis.

Meyer F, Bagchi S, Chaterji S, Gerlach W, Grama A, Harrison T, Paczian T, Trimble WL, Wilke A. Meyer F, et al. Among authors: wilke a. Brief Bioinform. 2019 Jul 19;20(4):1151-1159. doi: 10.1093/bib/bbx105. Brief Bioinform. 2019. PMID: 29028869 Free PMC article.

2

A RESTful API for accessing microbial community data for MG-RAST.

Wilke A, Bischof J, Harrison T, Brettin T, D'Souza M, Gerlach W, Matthews H, Paczian T, Wilkening J, Glass EM, Desai N, Meyer F. Wilke A, et al. PLoS Comput Biol. 2015 Jan 8;11(1):e1004008. doi: 10.1371/journal.pcbi.1004008. eCollection 2015 Jan. PLoS Comput Biol. 2015. PMID: 25569221 Free PMC article.

3

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. Wilke A, et al. Nucleic Acids Res. 2016 Jan 4;44(D1):D590-4. doi: 10.1093/nar/gkv1322. Epub 2015 Dec 9. Nucleic Acids Res. 2016. PMID: 26656948 Free PMC article.

4

The MG-RAST API explorer: an on-ramp for RESTful query composition.

Paczian T, Trimble WL, Gerlach W, Harrison T, Wilke A, Meyer F. Paczian T, et al. Among authors: wilke a. BMC Bioinformatics. 2019 Nov 8;20(1):561. doi: 10.1186/s12859-019-2993-0. BMC Bioinformatics. 2019. PMID: 31703549 Free PMC article.

5

The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes.

Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM, Kubal M, Paczian T, Rodriguez A, Stevens R, Wilke A, Wilkening J, Edwards RA. Meyer F, et al. Among authors: wilke a. BMC Bioinformatics. 2008 Sep 19;9:386. doi: 10.1186/1471-2105-9-386. BMC Bioinformatics. 2008. PMID: 18803844 Free PMC article.

6

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. Trimble WL, et al. Among authors: wilke a. BMC Bioinformatics. 2012 Jul 28;13:183. doi: 10.1186/1471-2105-13-183. BMC Bioinformatics. 2012. PMID: 22839106 Free PMC article.

7

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. Wilke A, et al. Methods Enzymol. 2013;531:487-523. doi: 10.1016/B978-0-12-407863-5.00022-8. Methods Enzymol. 2013. PMID: 24060134

8

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. Keegan KP, et al. Among authors: wilke a. PLoS Comput Biol. 2012;8(6):e1002541. doi: 10.1371/journal.pcbi.1002541. Epub 2012 Jun 7. PLoS Comput Biol. 2012. PMID: 22685393 Free PMC article.

9

The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools.

Wilke A, Harrison T, Wilkening J, Field D, Glass EM, Kyrpides N, Mavrommatis K, Meyer F. Wilke A, et al. BMC Bioinformatics. 2012 Jun 21;13:141. doi: 10.1186/1471-2105-13-141. BMC Bioinformatics. 2012. PMID: 22720753 Free PMC article.

10

Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG.

Mitra S, Rupek P, Richter DC, Urich T, Gilbert JA, Meyer F, Wilke A, Huson DH. Mitra S, et al. Among authors: wilke a. BMC Bioinformatics. 2011 Feb 15;12 Suppl 1(Suppl 1):S21. doi: 10.1186/1471-2105-12-S1-S21. BMC Bioinformatics. 2011. PMID: 21342551 Free PMC article.

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