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Results: 1 to 20 of 52

1.

A new approach for detecting low-level mutations in next-generation sequence data.

Li M, Stoneking M.

Genome Biol. 2012 May 23;13(5):R34. doi: 10.1186/gb-2012-13-5-r34.

PMID:
22621726
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Accurate detection and genotyping of SNPs utilizing population sequencing data.

Bansal V, Harismendy O, Tewhey R, Murray SS, Schork NJ, Topol EJ, Frazer KA.

Genome Res. 2010 Apr;20(4):537-45. doi: 10.1101/gr.100040.109. Epub 2010 Feb 11.

PMID:
20150320
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

A statistical method for the detection of variants from next-generation resequencing of DNA pools.

Bansal V.

Bioinformatics. 2010 Jun 15;26(12):i318-24. doi: 10.1093/bioinformatics/btq214.

PMID:
20529923
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Detecting heteroplasmy from high-throughput sequencing of complete human mitochondrial DNA genomes.

Li M, Schönberg A, Schaefer M, Schroeder R, Nasidze I, Stoneking M.

Am J Hum Genet. 2010 Aug 13;87(2):237-49. doi: 10.1016/j.ajhg.2010.07.014.

PMID:
20696290
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Whole genome sequencing of a single Bos taurus animal for single nucleotide polymorphism discovery.

Eck SH, Benet-Pagès A, Flisikowski K, Meitinger T, Fries R, Strom TM.

Genome Biol. 2009;10(8):R82. doi: 10.1186/gb-2009-10-8-r82. Epub 2009 Aug 6.

PMID:
19660108
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

A fast and accurate SNP detection algorithm for next-generation sequencing data.

Xu F, Wang W, Wang P, Jun Li M, Chung Sham P, Wang J.

Nat Commun. 2012;3:1258. doi: 10.1038/ncomms2256.

PMID:
23212387
[PubMed - indexed for MEDLINE]
7.

Accurate SNP and mutation detection by targeted custom microarray-based genomic enrichment of short-fragment sequencing libraries.

Mokry M, Feitsma H, Nijman IJ, de Bruijn E, van der Zaag PJ, Guryev V, Cuppen E.

Nucleic Acids Res. 2010 Jun;38(10):e116. doi: 10.1093/nar/gkq072. Epub 2010 Feb 17.

PMID:
20164091
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Confidence-based somatic mutation evaluation and prioritization.

Löwer M, Renard BY, de Graaf J, Wagner M, Paret C, Kneip C, Türeci O, Diken M, Britten C, Kreiter S, Koslowski M, Castle JC, Sahin U.

PLoS Comput Biol. 2012;8(9):e1002714. doi: 10.1371/journal.pcbi.1002714. Epub 2012 Sep 27.

PMID:
23028300
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Single nucleotide polymorphism discovery from wheat next-generation sequence data.

Lai K, Duran C, Berkman PJ, Lorenc MT, Stiller J, Manoli S, Hayden MJ, Forrest KL, Fleury D, Baumann U, Zander M, Mason AS, Batley J, Edwards D.

Plant Biotechnol J. 2012 Aug;10(6):743-9. doi: 10.1111/j.1467-7652.2012.00718.x. Epub 2012 Jul 3.

PMID:
22748104
[PubMed - indexed for MEDLINE]
10.

Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey.

Kerstens HH, Crooijmans RP, Veenendaal A, Dibbits BW, Chin-A-Woeng TF, den Dunnen JT, Groenen MA.

BMC Genomics. 2009 Oct 16;10:479. doi: 10.1186/1471-2164-10-479.

PMID:
19835600
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

High quality SNP calling using Illumina data at shallow coverage.

Malhis N, Jones SJ.

Bioinformatics. 2010 Apr 15;26(8):1029-35. doi: 10.1093/bioinformatics/btq092. Epub 2010 Feb 26.

PMID:
20190250
[PubMed - indexed for MEDLINE]
Free Article
12.

Mutant-bin: unsupervised haplotype estimation of viral population diversity without reference genome.

Prabhakara S, Malhotra R, Acharya R, Poss M.

J Comput Biol. 2013 Jun;20(6):453-63. doi: 10.1089/cmb.2012.0174.

PMID:
23718149
[PubMed - indexed for MEDLINE]
13.

A shot in the genome: how accurately do shotgun 454 sequences represent a genome?

Meglécz E, Pech N, Gilles A, Martin JF, Gardner MG.

BMC Res Notes. 2012 May 28;5:259.

PMID:
22640415
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

DNA bar coding and pyrosequencing to identify rare HIV drug resistance mutations.

Hoffmann C, Minkah N, Leipzig J, Wang G, Arens MQ, Tebas P, Bushman FD.

Nucleic Acids Res. 2007;35(13):e91. Epub 2007 Jun 18.

PMID:
17576693
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Whole-genome sequencing and variant discovery in C. elegans.

Hillier LW, Marth GT, Quinlan AR, Dooling D, Fewell G, Barnett D, Fox P, Glasscock JI, Hickenbotham M, Huang W, Magrini VJ, Richt RJ, Sander SN, Stewart DA, Stromberg M, Tsung EF, Wylie T, Schedl T, Wilson RK, Mardis ER.

Nat Methods. 2008 Feb;5(2):183-8. doi: 10.1038/nmeth.1179. Epub 2008 Jan 20.

PMID:
18204455
[PubMed - indexed for MEDLINE]
16.

Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing.

Qu W, Hashimoto S, Morishita S.

Genome Res. 2009 Jul;19(7):1309-15. doi: 10.1101/gr.089151.108. Epub 2009 May 13.

PMID:
19439514
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Single-molecule DNA sequencing of a viral genome.

Harris TD, Buzby PR, Babcock H, Beer E, Bowers J, Braslavsky I, Causey M, Colonell J, Dimeo J, Efcavitch JW, Giladi E, Gill J, Healy J, Jarosz M, Lapen D, Moulton K, Quake SR, Steinmann K, Thayer E, Tyurina A, Ward R, Weiss H, Xie Z.

Science. 2008 Apr 4;320(5872):106-9. doi: 10.1126/science.1150427.

PMID:
18388294
[PubMed - indexed for MEDLINE]
Free Article
18.

Identification of EMS-induced mutations in Drosophila melanogaster by whole-genome sequencing.

Blumenstiel JP, Noll AC, Griffiths JA, Perera AG, Walton KN, Gilliland WD, Hawley RS, Staehling-Hampton K.

Genetics. 2009 May;182(1):25-32. doi: 10.1534/genetics.109.101998. Epub 2009 Mar 23.

PMID:
19307605
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome.

Azam S, Thakur V, Ruperao P, Shah T, Balaji J, Amindala B, Farmer AD, Studholme DJ, May GD, Edwards D, Jones JD, Varshney RK.

Am J Bot. 2012 Feb;99(2):186-92. doi: 10.3732/ajb.1100419. Epub 2012 Feb 1.

PMID:
22301893
[PubMed - indexed for MEDLINE]
Free Article
20.

Preparing a re-sequencing DNA library of 2 cancer candidate genes using the ligation-by-amplification protocol by two PCR reactions.

Su Y, Lin L, Tian G, Chen C, Liu T, Xu X, Qi X, Zhang X, Yang H.

Sci China C Life Sci. 2009 May;52(5):483-91. doi: 10.1007/s11427-009-0066-8. Epub 2009 May 27.

PMID:
19471873
[PubMed - indexed for MEDLINE]

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