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Items: 16

1.

Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips.

Ritchie ME, Liu R, Carvalho BS; Australia and New Zealand Multiple Sclerosis Genetics Consortium (ANZgene)., Irizarry RA.

BMC Bioinformatics. 2011 Mar 8;12:68. doi: 10.1186/1471-2105-12-68.

2.

An interactive effect of batch size and composition contributes to discordant results in GWAS with the CHIAMO genotyping algorithm.

Chierici M, Miclaus K, Vega S, Furlanello C.

Pharmacogenomics J. 2010 Aug;10(4):355-63. doi: 10.1038/tpj.2010.47.

PMID:
20676073
3.

Assessment of variability in GWAS with CRLMM genotyping algorithm on WTCCC coronary artery disease.

Zhang L, Yin S, Miclaus K, Chierici M, Vega S, Lambert C, Hong H, Wolfinger RD, Furlanello C, Goodsaid F.

Pharmacogenomics J. 2010 Aug;10(4):347-54. doi: 10.1038/tpj.2010.27.

PMID:
20676072
4.
5.

R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips.

Ritchie ME, Carvalho BS, Hetrick KN, Tavaré S, Irizarry RA.

Bioinformatics. 2009 Oct 1;25(19):2621-3. doi: 10.1093/bioinformatics/btp470.

6.

GenoSNP: a variational Bayes within-sample SNP genotyping algorithm that does not require a reference population.

Giannoulatou E, Yau C, Colella S, Ragoussis J, Holmes CC.

Bioinformatics. 2008 Oct 1;24(19):2209-14. doi: 10.1093/bioinformatics/btn386.

PMID:
18653518
7.

A second generation human haplotype map of over 3.1 million SNPs.

International HapMap Consortium., Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Gibbs RA, Belmont JW, Boudreau A, Hardenbol P, Leal SM, Pasternak S, Wheeler DA, Willis TD, Yu F, Yang H, Zeng C, Gao Y, Hu H, Hu W, Li C, Lin W, Liu S, Pan H, Tang X, Wang J, Wang W, Yu J, Zhang B, Zhang Q, Zhao H, Zhao H, Zhou J, Gabriel SB, Barry R, Blumenstiel B, Camargo A, Defelice M, Faggart M, Goyette M, Gupta S, Moore J, Nguyen H, Onofrio RC, Parkin M, Roy J, Stahl E, Winchester E, Ziaugra L, Altshuler D, Shen Y, Yao Z, Huang W, Chu X, He Y, Jin L, Liu Y, Shen Y, Sun W, Wang H, Wang Y, Wang Y, Xiong X, Xu L, Waye MM, Tsui SK, Xue H, Wong JT, Galver LM, Fan JB, Gunderson K, Murray SS, Oliphant AR, Chee MS, Montpetit A, Chagnon F, Ferretti V, Leboeuf M, Olivier JF, Phillips MS, Roumy S, Sallée C, Verner A, Hudson TJ, Kwok PY, Cai D, Koboldt DC, Miller RD, Pawlikowska L, Taillon-Miller P, Xiao M, Tsui LC, Mak W, Song YQ, Tam PK, Nakamura Y, Kawaguchi T, Kitamoto T, Morizono T, Nagashima A, Ohnishi Y, Sekine A, Tanaka T, Tsunoda T, Deloukas P, Bird CP, Delgado M, Dermitzakis ET, Gwilliam R, Hunt S, Morrison J, Powell D, Stranger BE, Whittaker P, Bentley DR, Daly MJ, de Bakker PI, Barrett J, Chretien YR, Maller J, McCarroll S, Patterson N, Pe'er I, Price A, Purcell S, Richter DJ, Sabeti P, Saxena R, Schaffner SF, Sham PC, Varilly P, Altshuler D, Stein LD, Krishnan L, Smith AV, Tello-Ruiz MK, Thorisson GA, Chakravarti A, Chen PE, Cutler DJ, Kashuk CS, Lin S, Abecasis GR, Guan W, Li Y, Munro HM, Qin ZS, Thomas DJ, McVean G, Auton A, Bottolo L, Cardin N, Eyheramendy S, Freeman C, Marchini J, Myers S, Spencer C, Stephens M, Donnelly P, Cardon LR, Clarke G, Evans DM, Morris AP, Weir BS, Tsunoda T, Mullikin JC, Sherry ST, Feolo M, Skol A, Zhang H, Zeng C, Zhao H, Matsuda I, Fukushima Y, Macer DR, Suda E, Rotimi CN, Adebamowo CA, Ajayi I, Aniagwu T, Marshall PA, Nkwodimmah C, Royal CD, Leppert MF, Dixon M, Peiffer A, Qiu R, Kent A, Kato K, Niikawa N, Adewole IF, Knoppers BM, Foster MW, Clayton EW, Watkin J, Gibbs RA, Belmont JW, Muzny D, Nazareth L, Sodergren E, Weinstock GM, Wheeler DA, Yakub I, Gabriel SB, Onofrio RC, Richter DJ, Ziaugra L, Birren BW, Daly MJ, Altshuler D, Wilson RK, Fulton LL, Rogers J, Burton J, Carter NP, Clee CM, Griffiths M, Jones MC, McLay K, Plumb RW, Ross MT, Sims SK, Willey DL, Chen Z, Han H, Kang L, Godbout M, Wallenburg JC, L'Archevêque P, Bellemare G, Saeki K, Wang H, An D, Fu H, Li Q, Wang Z, Wang R, Holden AL, Brooks LD, McEwen JE, Guyer MS, Wang VO, Peterson JL, Shi M, Spiegel J, Sung LM, Zacharia LF, Collins FS, Kennedy K, Jamieson R, Stewart J.

Nature. 2007 Oct 18;449(7164):851-61.

8.

A genotype calling algorithm for the Illumina BeadArray platform.

Teo YY, Inouye M, Small KS, Gwilliam R, Deloukas P, Kwiatkowski DP, Clark TG.

Bioinformatics. 2007 Oct 15;23(20):2741-6.

9.

A new multipoint method for genome-wide association studies by imputation of genotypes.

Marchini J, Howie B, Myers S, McVean G, Donnelly P.

Nat Genet. 2007 Jul;39(7):906-13.

PMID:
17572673
10.

Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls.

Wellcome Trust Case Control Consortium..

Nature. 2007 Jun 7;447(7145):661-78.

11.

A genome-wide association study identifies novel risk loci for type 2 diabetes.

Sladek R, Rocheleau G, Rung J, Dina C, Shen L, Serre D, Boutin P, Vincent D, Belisle A, Hadjadj S, Balkau B, Heude B, Charpentier G, Hudson TJ, Montpetit A, Pshezhetsky AV, Prentki M, Posner BI, Balding DJ, Meyre D, Polychronakos C, Froguel P.

Nature. 2007 Feb 22;445(7130):881-5.

PMID:
17293876
12.

Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data.

Carvalho B, Bengtsson H, Speed TP, Irizarry RA.

Biostatistics. 2007 Apr;8(2):485-99.

PMID:
17189563
13.

Whole-genome genotyping with the single-base extension assay.

Steemers FJ, Chang W, Lee G, Barker DL, Shen R, Gunderson KL.

Nat Methods. 2006 Jan;3(1):31-3.

PMID:
16369550
14.

A genotype calling algorithm for affymetrix SNP arrays.

Rabbee N, Speed TP.

Bioinformatics. 2006 Jan 1;22(1):7-12.

PMID:
16267090
15.

Complement factor H polymorphism in age-related macular degeneration.

Klein RJ, Zeiss C, Chew EY, Tsai JY, Sackler RS, Haynes C, Henning AK, SanGiovanni JP, Mane SM, Mayne ST, Bracken MB, Ferris FL, Ott J, Barnstable C, Hoh J.

Science. 2005 Apr 15;308(5720):385-9.

16.

Quality and completeness of SNP databases.

Reich DE, Gabriel SB, Altshuler D.

Nat Genet. 2003 Apr;33(4):457-8.

PMID:
12652301

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