Chain PS - Search Results

1

Ecological roles of dominant and rare prokaryotes in acid mine drainage revealed by metagenomics and metatranscriptomics.

Hua ZS, Han YJ, Chen LX, Liu J, Hu M, Li SJ, Kuang JL, Chain PS, Huang LN, Shu WS. Hua ZS, et al. Among authors: chain ps. ISME J. 2015 Jun;9(6):1280-94. doi: 10.1038/ismej.2014.212. Epub 2014 Nov 7. ISME J. 2015. PMID: 25361395 Free PMC article.

2

Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis.

Scholz MB, Lo CC, Chain PS. Scholz MB, et al. Among authors: chain ps. Curr Opin Biotechnol. 2012 Feb;23(1):9-15. doi: 10.1016/j.copbio.2011.11.013. Epub 2011 Dec 9. Curr Opin Biotechnol. 2012. PMID: 22154470 Review.

3

Pathogen comparative genomics in the next-generation sequencing era: genome alignments, pangenomics and metagenomics.

Hu B, Xie G, Lo CC, Starkenburg SR, Chain PS. Hu B, et al. Among authors: chain ps. Brief Funct Genomics. 2011 Nov;10(6):322-33. doi: 10.1093/bfgp/elr042. Brief Funct Genomics. 2011. PMID: 22199376 Review.

4

Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill.

Mason OU, Hazen TC, Borglin S, Chain PS, Dubinsky EA, Fortney JL, Han J, Holman HY, Hultman J, Lamendella R, Mackelprang R, Malfatti S, Tom LM, Tringe SG, Woyke T, Zhou J, Rubin EM, Jansson JK. Mason OU, et al. Among authors: chain ps. ISME J. 2012 Sep;6(9):1715-27. doi: 10.1038/ismej.2012.59. Epub 2012 Jun 21. ISME J. 2012. PMID: 22717885 Free PMC article.

5

Combining compositional data sets introduces error in covariance network reconstruction.

Brunner JD, Robinson AJ, Chain PSG. Brunner JD, et al. Among authors: chain psg. ISME Commun. 2024 Apr 19;4(1):ycae057. doi: 10.1093/ismeco/ycae057. eCollection 2024 Jan. ISME Commun. 2024. PMID: 38812718 Free PMC article.

6

Genomics for key players in the N cycle from guinea pigs to the next frontier.

Chain PS, Xie G, Starkenburg SR, Scholz MB, Beckloff N, Lo CC, Davenport KW, Reitenga KG, Daligault HE, Detter JC, Freitas TA, Gleasner CD, Green LD, Han CS, McMurry KK, Meincke LJ, Shen X, Zeytun A. Chain PS, et al. Methods Enzymol. 2011;496:289-318. doi: 10.1016/B978-0-12-386489-5.00012-9. Methods Enzymol. 2011. PMID: 21514469 Review.

7

Standards for sequencing viral genomes in the era of high-throughput sequencing.

Ladner JT, Beitzel B, Chain PS, Davenport MG, Donaldson EF, Frieman M, Kugelman JR, Kuhn JH, O'Rear J, Sabeti PC, Wentworth DE, Wiley MR, Yu GY; Threat Characterization Consortium; Sozhamannan S, Bradburne C, Palacios G. Ladner JT, et al. Among authors: chain ps. mBio. 2014 Jun 17;5(3):e01360-14. doi: 10.1128/mBio.01360-14. mBio. 2014. PMID: 24939889 Free PMC article.

8

Rapid evaluation and quality control of next generation sequencing data with FaQCs.

Lo CC, Chain PS. Lo CC, et al. Among authors: chain ps. BMC Bioinformatics. 2014 Nov 19;15(1):366. doi: 10.1186/s12859-014-0366-2. BMC Bioinformatics. 2014. PMID: 25408143 Free PMC article.

9

Accurate read-based metagenome characterization using a hierarchical suite of unique signatures.

Freitas TA, Li PE, Scholz MB, Chain PS. Freitas TA, et al. Among authors: chain ps. Nucleic Acids Res. 2015 May 26;43(10):e69. doi: 10.1093/nar/gkv180. Epub 2015 Mar 12. Nucleic Acids Res. 2015. PMID: 25765641 Free PMC article.

10

ADEPT, a dynamic next generation sequencing data error-detection program with trimming.

Feng S, Lo CC, Li PE, Chain PS. Feng S, et al. Among authors: chain ps. BMC Bioinformatics. 2016 Feb 29;17:109. doi: 10.1186/s12859-016-0967-z. BMC Bioinformatics. 2016. PMID: 26928302 Free PMC article.

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