Schirmer M - Search Results

1

Binning metagenomic contigs by coverage and composition.

Alneberg J, Bjarnason BS, de Bruijn I, Schirmer M, Quick J, Ijaz UZ, Lahti L, Loman NJ, Andersson AF, Quince C. Alneberg J, et al. Among authors: schirmer m. Nat Methods. 2014 Nov;11(11):1144-6. doi: 10.1038/nmeth.3103. Epub 2014 Sep 14. Nat Methods. 2014. PMID: 25218180

2

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data.

Schirmer M, D'Amore R, Ijaz UZ, Hall N, Quince C. Schirmer M, et al. BMC Bioinformatics. 2016 Mar 11;17:125. doi: 10.1186/s12859-016-0976-y. BMC Bioinformatics. 2016. PMID: 26968756 Free PMC article.

3

Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform.

Schirmer M, Ijaz UZ, D'Amore R, Hall N, Sloan WT, Quince C. Schirmer M, et al. Nucleic Acids Res. 2015 Mar 31;43(6):e37. doi: 10.1093/nar/gku1341. Epub 2015 Jan 13. Nucleic Acids Res. 2015. PMID: 25586220 Free PMC article.

4

Metagenomic Sequencing Unravels Gene Fragments with Phylogenetic Signatures of O2-Tolerant NiFe Membrane-Bound Hydrogenases in Lacustrine Sediment.

Couto JM, Ijaz UZ, Phoenix VR, Schirmer M, Sloan WT. Couto JM, et al. Among authors: schirmer m. Curr Microbiol. 2015 Aug;71(2):296-302. doi: 10.1007/s00284-015-0846-2. Epub 2015 Jun 5. Curr Microbiol. 2015. PMID: 26044993 Free PMC article.

5

Benchmarking of viral haplotype reconstruction programmes: an overview of the capacities and limitations of currently available programmes.

Schirmer M, Sloan WT, Quince C. Schirmer M, et al. Brief Bioinform. 2014 May;15(3):431-42. doi: 10.1093/bib/bbs081. Epub 2012 Dec 19. Brief Bioinform. 2014. PMID: 23257116 Review.

6

Stable-isotope probing and metagenomics reveal predation by protozoa drives E. coli removal in slow sand filters.

Haig SJ, Schirmer M, D'Amore R, Gibbs J, Davies RL, Collins G, Quince C. Haig SJ, et al. Among authors: schirmer m. ISME J. 2015 Mar 17;9(4):797-808. doi: 10.1038/ismej.2014.175. ISME J. 2015. PMID: 25279786 Free PMC article.

7

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling.

D'Amore R, Ijaz UZ, Schirmer M, Kenny JG, Gregory R, Darby AC, Shakya M, Podar M, Quince C, Hall N. D'Amore R, et al. Among authors: schirmer m. BMC Genomics. 2016 Jan 14;17:55. doi: 10.1186/s12864-015-2194-9. BMC Genomics. 2016. PMID: 26763898 Free PMC article.

8

PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes.

Gregor I, Dröge J, Schirmer M, Quince C, McHardy AC. Gregor I, et al. Among authors: schirmer m. PeerJ. 2016 Feb 8;4:e1603. doi: 10.7717/peerj.1603. eCollection 2016. PeerJ. 2016. PMID: 26870609 Free PMC article.

9

Species-level functional profiling of metagenomes and metatranscriptomes.

Franzosa EA, McIver LJ, Rahnavard G, Thompson LR, Schirmer M, Weingart G, Lipson KS, Knight R, Caporaso JG, Segata N, Huttenhower C. Franzosa EA, et al. Among authors: schirmer m. Nat Methods. 2018 Nov;15(11):962-968. doi: 10.1038/s41592-018-0176-y. Epub 2018 Oct 30. Nat Methods. 2018. PMID: 30377376 Free PMC article.

10

The effect of host genetics on the gut microbiome.

Bonder MJ, Kurilshikov A, Tigchelaar EF, Mujagic Z, Imhann F, Vila AV, Deelen P, Vatanen T, Schirmer M, Smeekens SP, Zhernakova DV, Jankipersadsing SA, Jaeger M, Oosting M, Cenit MC, Masclee AA, Swertz MA, Li Y, Kumar V, Joosten L, Harmsen H, Weersma RK, Franke L, Hofker MH, Xavier RJ, Jonkers D, Netea MG, Wijmenga C, Fu J, Zhernakova A. Bonder MJ, et al. Among authors: schirmer m. Nat Genet. 2016 Nov;48(11):1407-1412. doi: 10.1038/ng.3663. Epub 2016 Oct 3. Nat Genet. 2016. PMID: 27694959

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