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Items: 16

1.

A statistical framework for accurate taxonomic assignment of metagenomic sequencing reads.

Jiang H, An L, Lin SM, Feng G, Qiu Y.

PLoS One. 2012;7(10):e46450. doi: 10.1371/journal.pone.0046450. Epub 2012 Oct 1. Erratum in: PLoS One. 2013;8(5). doi:10.1371/annotation/c08da7e7-60fe-4f7d-a457-299bf9f24148.

2.

Metagenomics: microbial diversity through a scratched lens.

Temperton B, Giovannoni SJ.

Curr Opin Microbiol. 2012 Oct;15(5):605-12. doi: 10.1016/j.mib.2012.07.001. Epub 2012 Jul 23. Review.

PMID:
22831844
3.

Reference databases for taxonomic assignment in metagenomics.

Santamaria M, Fosso B, Consiglio A, De Caro G, Grillo G, Licciulli F, Liuni S, Marzano M, Alonso-Alemany D, Valiente G, Pesole G.

Brief Bioinform. 2012 Nov;13(6):682-95. doi: 10.1093/bib/bbs036. Epub 2012 Jul 10. Review.

4.

Sequence assembly using next generation sequencing data--challenges and solutions.

Chin FY, Leung HC, Yiu SM.

Sci China Life Sci. 2014 Nov;57(11):1140-8. doi: 10.1007/s11427-014-4752-9. Epub 2014 Oct 17. Review.

PMID:
25326069
5.

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

Scholz MB, Lo CC, Chain PS.

Curr Opin Biotechnol. 2012 Feb;23(1):9-15. doi: 10.1016/j.copbio.2011.11.013. Epub 2011 Dec 9. Review.

PMID:
22154470
6.

[A review on the bioinformatics pipelines for metagenomic research].

Ye DD, Fan MM, Guan Q, Chen HJ, Ma ZS.

Dongwuxue Yanjiu. 2012 Dec;33(6):574-85. doi: 10.3724/SP.J.1141.2012.06574. Review. Chinese.

7.

Single cell genome sequencing.

Yilmaz S, Singh AK.

Curr Opin Biotechnol. 2012 Jun;23(3):437-43. doi: 10.1016/j.copbio.2011.11.018. Epub 2011 Dec 7. Review.

8.

New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing.

Song K, Ren J, Reinert G, Deng M, Waterman MS, Sun F.

Brief Bioinform. 2014 May;15(3):343-53. doi: 10.1093/bib/bbt067. Epub 2013 Sep 23. Review.

9.

Web Resources for Metagenomics Studies.

Dudhagara P, Bhavsar S, Bhagat C, Ghelani A, Bhatt S, Patel R.

Genomics Proteomics Bioinformatics. 2015 Oct;13(5):296-303. doi: 10.1016/j.gpb.2015.10.003. Epub 2015 Nov 18. Review.

10.

Compressive biological sequence analysis and archival in the era of high-throughput sequencing technologies.

Giancarlo R, Rombo SE, Utro F.

Brief Bioinform. 2014 May;15(3):390-406. doi: 10.1093/bib/bbt088. Epub 2013 Dec 17. Review.

11.

Metamobilomics--expanding our knowledge on the pool of plasmid encoded traits in natural environments using high-throughput sequencing.

Li LL, Norman A, Hansen LH, Sørensen SJ.

Clin Microbiol Infect. 2012 Jul;18 Suppl 4:5-7. doi: 10.1111/j.1469-0691.2012.03862.x. Review.

12.

Methods for virus classification and the challenge of incorporating metagenomic sequence data.

Simmonds P.

J Gen Virol. 2015 Jun;96(Pt 6):1193-206. doi: 10.1099/jgv.0.000016. Review. Erratum in: J Gen Virol. 2015 Aug;96(8):2470.

PMID:
26068186
13.

[Research in metagenomics and its applications in translational medicine].

Jiahuan C, Zheng S, Xiaojun W, Xiaoquan S, Kang N.

Yi Chuan. 2015 Jul;37(7):645-54. doi: 10.16288/j.yczz.14-444. Review. Chinese.

PMID:
26351164
14.

Thermophilic fungi in the new age of fungal taxonomy.

de Oliveira TB, Gomes E, Rodrigues A.

Extremophiles. 2015 Jan;19(1):31-7. doi: 10.1007/s00792-014-0707-0. Epub 2014 Nov 16. Review.

PMID:
25399310
15.

Genomic and Metagenomic Approaches for Predicting Pathogen Evolution.

Casas V, Maloy S.

Microbiol Spectr. 2014 Feb;2(1):OH-0019-2013. doi: 10.1128/microbiolspec.OH-0019-2013. Review.

PMID:
26082117
16.

Reads meet rotamers: structural biology in the age of deep sequencing.

Sethi A, Clarke D, Chen J, Kumar S, Galeev TR, Regan L, Gerstein M.

Curr Opin Struct Biol. 2015 Dec;35:125-34. doi: 10.1016/j.sbi.2015.11.003. Epub 2015 Dec 1. Review.

PMID:
26658741
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