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Results: 1 to 20 of 98

1.

Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays.

Lin S, Carvalho B, Cutler DJ, Arking DE, Chakravarti A, Irizarry RA.

Genome Biol. 2008 Apr 3;9(4):R63. doi: 10.1186/gb-2008-9-4-r63.

PMID:
18387188
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples.

Hong H, Su Z, Ge W, Shi L, Perkins R, Fang H, Xu J, Chen JJ, Han T, Kaput J, Fuscoe JC, Tong W.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S17. doi: 10.1186/1471-2105-9-S9-S17.

PMID:
18793462
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Evaluating the influence of quality control decisions and software algorithms on SNP calling for the affymetrix 6.0 SNP array platform.

de Andrade M, Atkinson EJ, Bamlet WR, Matsumoto ME, Maharjan S, Slager SL, Vachon CM, Cunningham JM, Kardia SL.

Hum Hered. 2011;71(4):221-33. doi: 10.1159/000328843. Epub 2011 Jul 2.

PMID:
21734406
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A new genotype calling method for affymetrix SNP arrays.

Fu B, Xu J.

J Bioinform Comput Biol. 2011 Dec;9(6):715-28.

PMID:
22084010
[PubMed - indexed for MEDLINE]
5.

SNiPer-HD: improved genotype calling accuracy by an expectation-maximization algorithm for high-density SNP arrays.

Hua J, Craig DW, Brun M, Webster J, Zismann V, Tembe W, Joshipura K, Huentelman MJ, Dougherty ER, Stephan DA.

Bioinformatics. 2007 Jan 1;23(1):57-63. Epub 2006 Oct 24.

PMID:
17062589
[PubMed - indexed for MEDLINE]
Free Article
6.

A multi-array multi-SNP genotyping algorithm for Affymetrix SNP microarrays.

Xiao Y, Segal MR, Yang YH, Yeh RF.

Bioinformatics. 2007 Jun 15;23(12):1459-67. Epub 2007 Apr 25.

PMID:
17459966
[PubMed - indexed for MEDLINE]
Free Article
7.

Quantifying uncertainty in genotype calls.

Carvalho BS, Louis TA, Irizarry RA.

Bioinformatics. 2010 Jan 15;26(2):242-9. doi: 10.1093/bioinformatics/btp624. Epub 2009 Nov 11.

PMID:
19906825
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

SNiPer: improved SNP genotype calling for Affymetrix 10K GeneChip microarray data.

Huentelman MJ, Craig DW, Shieh AD, Corneveaux JJ, Hu-Lince D, Pearson JV, Stephan DA.

BMC Genomics. 2005 Oct 31;6:149.

PMID:
16262895
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Empirical Bayes analysis of single nucleotide polymorphisms.

Schwender H, Ickstadt K.

BMC Bioinformatics. 2008 Mar 6;9:144. doi: 10.1186/1471-2105-9-144.

PMID:
18325106
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

M(3): an improved SNP calling algorithm for Illumina BeadArray data.

Li G, Gelernter J, Kranzler HR, Zhao H.

Bioinformatics. 2012 Feb 1;28(3):358-65. doi: 10.1093/bioinformatics/btr673. Epub 2011 Dec 8.

PMID:
22155947
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Assessing consistency between versions of genotype-calling algorithm Birdseed for the Genome-Wide Human SNP Array 6.0 using HapMap samples.

Hong H, Xu L, Tong W.

Adv Exp Med Biol. 2010;680:355-60. doi: 10.1007/978-1-4419-5913-3_40.

PMID:
20865519
[PubMed - indexed for MEDLINE]
12.

Dynamic model based algorithms for screening and genotyping over 100 K SNPs on oligonucleotide microarrays.

Di X, Matsuzaki H, Webster TA, Hubbell E, Liu G, Dong S, Bartell D, Huang J, Chiles R, Yang G, Shen MM, Kulp D, Kennedy GC, Mei R, Jones KW, Cawley S.

Bioinformatics. 2005 May 1;21(9):1958-63. Epub 2005 Jan 18.

PMID:
15657097
[PubMed - indexed for MEDLINE]
Free Article
13.

Genotype calling for the Affymetrix platform.

Schillert A, Ziegler A.

Methods Mol Biol. 2012;850:513-23. doi: 10.1007/978-1-61779-555-8_28.

PMID:
22307717
[PubMed - indexed for MEDLINE]
14.

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. Epub 2007 Sep 10.

PMID:
17846035
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Joint genotype calling with array and sequence data.

O'Connell J, Marchini J.

Genet Epidemiol. 2012 Sep;36(6):527-37. doi: 10.1002/gepi.21657. Epub 2012 Jul 20.

PMID:
22821426
[PubMed - indexed for MEDLINE]
16.

A note on statistical method for genotype calling of high-throughput SNP arrays.

Yang J, Zhang W, Wu B.

J Appl Stat. 2013;40(6):1372-1381.

PMID:
23667285
[PubMed]
Free PMC Article
17.

Spatial normalization improves the quality of genotype calling for Affymetrix SNP 6.0 arrays.

Chai HS, Therneau TM, Bailey KR, Kocher JP.

BMC Bioinformatics. 2010 Jun 29;11:356. doi: 10.1186/1471-2105-11-356.

PMID:
20587065
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Genotyping and annotation of Affymetrix SNP arrays.

Lamy P, Andersen CL, Wikman FP, Wiuf C.

Nucleic Acids Res. 2006;34(14):e100. Epub 2006 Aug 9.

PMID:
16899450
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Evaluating the performance of Affymetrix SNP Array 6.0 platform with 400 Japanese individuals.

Nishida N, Koike A, Tajima A, Ogasawara Y, Ishibashi Y, Uehara Y, Inoue I, Tokunaga K.

BMC Genomics. 2008 Sep 22;9:431. doi: 10.1186/1471-2164-9-431.

PMID:
18803882
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

A genotype calling algorithm for affymetrix SNP arrays.

Rabbee N, Speed TP.

Bioinformatics. 2006 Jan 1;22(1):7-12. Epub 2005 Nov 2.

PMID:
16267090
[PubMed - indexed for MEDLINE]
Free Article

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