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Results: 1 to 20 of 97

1.

Effective detection of rare variants in pooled DNA samples using Cross-pool tailcurve analysis.

Niranjan TS, Adamczyk A, Bravo HC, Taub MA, Wheelan SJ, Irizarry R, Wang T.

Genome Biol. 2011 Sep 28;12(9):R93. doi: 10.1186/gb-2011-12-9-r93.

PMID:
21955804
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Population-based rare variant detection via pooled exome or custom hybridization capture with or without individual indexing.

Ramos E, Levinson BT, Chasnoff S, Hughes A, Young AL, Thornton K, Li A, Vallania FL, Province M, Druley TE.

BMC Genomics. 2012 Dec 6;13:683. doi: 10.1186/1471-2164-13-683.

PMID:
23216810
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Quantification of rare allelic variants from pooled genomic DNA.

Druley TE, Vallania FL, Wegner DJ, Varley KE, Knowles OL, Bonds JA, Robison SW, Doniger SW, Hamvas A, Cole FS, Fay JC, Mitra RD.

Nat Methods. 2009 Apr;6(4):263-5. doi: 10.1038/nmeth.1307. Epub 2009 Mar 1.

PMID:
19252504
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Detection of rare genomic variants from pooled sequencing using SPLINTER.

Vallania F, Ramos E, Cresci S, Mitra RD, Druley TE.

J Vis Exp. 2012 Jun 23;(64). pii: 3943. doi: 10.3791/3943.

PMID:
22760212
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

The functional spectrum of low-frequency coding variation.

Marth GT, Yu F, Indap AR, Garimella K, Gravel S, Leong WF, Tyler-Smith C, Bainbridge M, Blackwell T, Zheng-Bradley X, Chen Y, Challis D, Clarke L, Ball EV, Cibulskis K, Cooper DN, Fulton B, Hartl C, Koboldt D, Muzny D, Smith R, Sougnez C, Stewart C, Ward A, Yu J, Xue Y, Altshuler D, Bustamante CD, Clark AG, Daly M, DePristo M, Flicek P, Gabriel S, Mardis E, Palotie A, Gibbs R; 1000 Genomes Project.

Genome Biol. 2011 Sep 14;12(9):R84. doi: 10.1186/gb-2011-12-9-r84.

PMID:
21917140
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Comparison of solution-based exome capture methods for next generation sequencing.

Sulonen AM, Ellonen P, Almusa H, Lepistö M, Eldfors S, Hannula S, Miettinen T, Tyynismaa H, Salo P, Heckman C, Joensuu H, Raivio T, Suomalainen A, Saarela J.

Genome Biol. 2011 Sep 28;12(9):R94. doi: 10.1186/gb-2011-12-9-r94.

PMID:
21955854
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Deep sequencing to reveal new variants in pooled DNA samples.

Out AA, van Minderhout IJ, Goeman JJ, Ariyurek Y, Ossowski S, Schneeberger K, Weigel D, van Galen M, Taschner PE, Tops CM, Breuning MH, van Ommen GJ, den Dunnen JT, Devilee P, Hes FJ.

Hum Mutat. 2009 Dec;30(12):1703-12. doi: 10.1002/humu.21122.

PMID:
19842214
[PubMed - indexed for MEDLINE]
8.

Efficient identification of rare variants in large populations: deep re-sequencing the CRP locus in the CARDIA study.

Chen CT, McDavid AN, Kahsai OJ, Zebari AS, Carlson CS.

Nucleic Acids Res. 2013 Apr;41(7):e85. doi: 10.1093/nar/gkt092. Epub 2013 Feb 13.

PMID:
23408856
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Accurate variant detection across non-amplified and whole genome amplified DNA using targeted next generation sequencing.

ElSharawy A, Warner J, Olson J, Forster M, Schilhabel MB, Link DR, Rose-John S, Schreiber S, Rosenstiel P, Brayer J, Franke A.

BMC Genomics. 2012 Sep 20;13:500. doi: 10.1186/1471-2164-13-500.

PMID:
22994565
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Rare variant discovery and calling by sequencing pooled samples with overlaps.

Wang W, Yin X, Soo Pyon Y, Hayes M, Li J.

Bioinformatics. 2013 Jan 1;29(1):29-38. doi: 10.1093/bioinformatics/bts645. Epub 2012 Oct 27.

PMID:
23104896
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Identifying rare variants with optimal depth of coverage and cost-effective overlapping pool sequencing.

Cao CC, Li C, Huang Z, Ma X, Sun X.

Genet Epidemiol. 2013 Dec;37(8):820-30. doi: 10.1002/gepi.21769. Epub 2013 Oct 28.

PMID:
24166758
[PubMed - indexed for MEDLINE]
12.

SNP calling by sequencing pooled samples.

Raineri E, Ferretti L, Esteve-Codina A, Nevado B, Heath S, Pérez-Enciso M.

BMC Bioinformatics. 2012 Sep 20;13:239. doi: 10.1186/1471-2105-13-239.

PMID:
22992255
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment.

Berglund EC, Lindqvist CM, Hayat S, Övernäs E, Henriksson N, Nordlund J, Wahlberg P, Forestier E, Lönnerholm G, Syvänen AC.

BMC Genomics. 2013 Dec 5;14:856. doi: 10.1186/1471-2164-14-856.

PMID:
24314227
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

A unified approach for allele frequency estimation, SNP detection and association studies based on pooled sequencing data using EM algorithms.

Chen Q, Sun F.

BMC Genomics. 2013;14 Suppl 1:S1. doi: 10.1186/1471-2164-14-S1-S1. Epub 2013 Jan 21.

PMID:
23369070
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

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
16.

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
17.

VarScan: variant detection in massively parallel sequencing of individual and pooled samples.

Koboldt DC, Chen K, Wylie T, Larson DE, McLellan MD, Mardis ER, Weinstock GM, Wilson RK, Ding L.

Bioinformatics. 2009 Sep 1;25(17):2283-5. doi: 10.1093/bioinformatics/btp373. Epub 2009 Jun 19.

PMID:
19542151
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Efficient and cost effective population resequencing by pooling and in-solution hybridization.

Bansal V, Tewhey R, Leproust EM, Schork NJ.

PLoS One. 2011 Mar 30;6(3):e18353. doi: 10.1371/journal.pone.0018353.

PMID:
21479135
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Human genome sequencing using unchained base reads on self-assembling DNA nanoarrays.

Drmanac R, Sparks AB, Callow MJ, Halpern AL, Burns NL, Kermani BG, Carnevali P, Nazarenko I, Nilsen GB, Yeung G, Dahl F, Fernandez A, Staker B, Pant KP, Baccash J, Borcherding AP, Brownley A, Cedeno R, Chen L, Chernikoff D, Cheung A, Chirita R, Curson B, Ebert JC, Hacker CR, Hartlage R, Hauser B, Huang S, Jiang Y, Karpinchyk V, Koenig M, Kong C, Landers T, Le C, Liu J, McBride CE, Morenzoni M, Morey RE, Mutch K, Perazich H, Perry K, Peters BA, Peterson J, Pethiyagoda CL, Pothuraju K, Richter C, Rosenbaum AM, Roy S, Shafto J, Sharanhovich U, Shannon KW, Sheppy CG, Sun M, Thakuria JV, Tran A, Vu D, Zaranek AW, Wu X, Drmanac S, Oliphant AR, Banyai WC, Martin B, Ballinger DG, Church GM, Reid CA.

Science. 2010 Jan 1;327(5961):78-81. doi: 10.1126/science.1181498. Epub 2009 Nov 5.

PMID:
19892942
[PubMed - indexed for MEDLINE]
Free Article
20.

Allele-specific polymerase chain reaction for the detection of Alzheimer's disease-related single nucleotide polymorphisms.

Darawi MN, Ai-Vyrn C, Ramasamy K, Hua PP, Pin TM, Kamaruzzaman SB, Majeed AB.

BMC Med Genet. 2013 Feb 19;14:27. doi: 10.1186/1471-2350-14-27.

PMID:
23419238
[PubMed - indexed for MEDLINE]
Free PMC Article

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