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Results: 1 to 20 of 201

1.

Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and genome analyzer systems.

Minoche AE, Dohm JC, Himmelbauer H.

Genome Biol. 2011 Nov 8;12(11):R112. doi: 10.1186/gb-2011-12-11-r112.

PMID:
22067484
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing.

Dohm JC, Lottaz C, Borodina T, Himmelbauer H.

Nucleic Acids Res. 2008 Sep;36(16):e105. doi: 10.1093/nar/gkn425. Epub 2008 Jul 26.

PMID:
18660515
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Discovering motifs that induce sequencing errors.

Allhoff M, Schönhuth A, Martin M, Costa IG, Rahmann S, Marschall T.

BMC Bioinformatics. 2013;14 Suppl 5:S1. doi: 10.1186/1471-2105-14-S5-S1. Epub 2013 Apr 10.

PMID:
23735080
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers.

Quail MA, Smith M, Coupland P, Otto TD, Harris SR, Connor TR, Bertoni A, Swerdlow HP, Gu Y.

BMC Genomics. 2012 Jul 24;13:341. doi: 10.1186/1471-2164-13-341.

PMID:
22827831
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

SInC: an accurate and fast error-model based simulator for SNPs, Indels and CNVs coupled with a read generator for short-read sequence data.

Pattnaik S, Gupta S, Rao AA, Panda B.

BMC Bioinformatics. 2014 Feb 5;15:40. doi: 10.1186/1471-2105-15-40.

PMID:
24495296
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Optimizing hybrid assembly of next-generation sequence data from Enterococcus faecium: a microbe with highly divergent genome.

Wang Y, Yu Y, Pan B, Hao P, Li Y, Shao Z, Xu X, Li X.

BMC Syst Biol. 2012;6 Suppl 3:S21. doi: 10.1186/1752-0509-6-S3-S21. Epub 2012 Dec 17.

PMID:
23282199
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Lane-by-lane sequencing using Illumina's Genome Analyzer II.

Gravina MT, Lin JH, Levine SS.

Biotechniques. 2013 May;54(5):265-9. doi: 10.2144/000114032.

PMID:
23662897
[PubMed - indexed for MEDLINE]
Free Article
8.

Variant identification in multi-sample pools by illumina genome analyzer sequencing.

Margraf RL, Durtschi JD, Dames S, Pattison DC, Stephens JE, Voelkerding KV.

J Biomol Tech. 2011 Jul;22(2):74-84.

PMID:
21738440
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Identification and correction of systematic error in high-throughput sequence data.

Meacham F, Boffelli D, Dhahbi J, Martin DI, Singer M, Pachter L.

BMC Bioinformatics. 2011 Nov 21;12:451. doi: 10.1186/1471-2105-12-451.

PMID:
22099972
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing.

Bokulich NA, Subramanian S, Faith JJ, Gevers D, Gordon JI, Knight R, Mills DA, Caporaso JG.

Nat Methods. 2013 Jan;10(1):57-9. doi: 10.1038/nmeth.2276. Epub 2012 Dec 2.

PMID:
23202435
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Summarizing and correcting the GC content bias in high-throughput sequencing.

Benjamini Y, Speed TP.

Nucleic Acids Res. 2012 May;40(10):e72. doi: 10.1093/nar/gks001. Epub 2012 Feb 9.

PMID:
22323520
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Comparison of sequencing platforms for single nucleotide variant calls in a human sample.

Ratan A, Miller W, Guillory J, Stinson J, Seshagiri S, Schuster SC.

PLoS One. 2013;8(2):e55089. doi: 10.1371/journal.pone.0055089. Epub 2013 Feb 6.

PMID:
23405114
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

BayesCall: A model-based base-calling algorithm for high-throughput short-read sequencing.

Kao WC, Stevens K, Song YS.

Genome Res. 2009 Oct;19(10):1884-95. doi: 10.1101/gr.095299.109. Epub 2009 Aug 6.

PMID:
19661376
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The effect of strand bias in Illumina short-read sequencing data.

Guo Y, Li J, Li CI, Long J, Samuels DC, Shyr Y.

BMC Genomics. 2012 Nov 24;13:666. doi: 10.1186/1471-2164-13-666.

PMID:
23176052
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Systematic bias in high-throughput sequencing data and its correction by BEADS.

Cheung MS, Down TA, Latorre I, Ahringer J.

Nucleic Acids Res. 2011 Aug;39(15):e103. doi: 10.1093/nar/gkr425. Epub 2011 Jun 6.

PMID:
21646344
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Sequencing error correction without a reference genome.

Sleep JA, Schreiber AW, Baumann U.

BMC Bioinformatics. 2013 Dec 18;14:367. doi: 10.1186/1471-2105-14-367.

PMID:
24350580
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

pIRS: Profile-based Illumina pair-end reads simulator.

Hu X, Yuan J, Shi Y, Lu J, Liu B, Li Z, Chen Y, Mu D, Zhang H, Li N, Yue Z, Bai F, Li H, Fan W.

Bioinformatics. 2012 Jun 1;28(11):1533-5. doi: 10.1093/bioinformatics/bts187. Epub 2012 Apr 15.

PMID:
22508794
[PubMed - indexed for MEDLINE]
Free Article
18.

Massively parallel sequencing approaches for characterization of structural variation.

Koboldt DC, Larson DE, Chen K, Ding L, Wilson RK.

Methods Mol Biol. 2012;838:369-84. doi: 10.1007/978-1-61779-507-7_18. Review.

PMID:
22228022
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

An evaluation of the PacBio RS platform for sequencing and de novo assembly of a chloroplast genome.

Ferrarini M, Moretto M, Ward JA, Šurbanovski N, Stevanović V, Giongo L, Viola R, Cavalieri D, Velasco R, Cestaro A, Sargent DJ.

BMC Genomics. 2013 Oct 1;14:670. doi: 10.1186/1471-2164-14-670.

PMID:
24083400
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Accurate and comprehensive sequencing of personal genomes.

Ajay SS, Parker SC, Abaan HO, Fajardo KV, Margulies EH.

Genome Res. 2011 Sep;21(9):1498-505. doi: 10.1101/gr.123638.111. Epub 2011 Jul 19.

PMID:
21771779
[PubMed - indexed for MEDLINE]
Free PMC Article

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