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Results: 1 to 20 of 164

1.

Efficiency and power as a function of sequence coverage, SNP array density, and imputation.

Flannick J, Korn JM, Fontanillas P, Grant GB, Banks E, Depristo MA, Altshuler D.

PLoS Comput Biol. 2012;8(7):e1002604. doi: 10.1371/journal.pcbi.1002604. Epub 2012 Jul 12.

PMID:
22807667
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Accuracy of genome-wide imputation of untyped markers and impacts on statistical power for association studies.

Hao K, Chudin E, McElwee J, Schadt EE.

BMC Genet. 2009 Jun 16;10:27. doi: 10.1186/1471-2156-10-27.

PMID:
19531258
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

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
4.

SeqEM: an adaptive genotype-calling approach for next-generation sequencing studies.

Martin ER, Kinnamon DD, Schmidt MA, Powell EH, Zuchner S, Morris RW.

Bioinformatics. 2010 Nov 15;26(22):2803-10. doi: 10.1093/bioinformatics/btq526. Epub 2010 Sep 21.

PMID:
20861027
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms.

Greminger MP, Stölting KN, Nater A, Goossens B, Arora N, Bruggmann R, Patrignani A, Nussberger B, Sharma R, Kraus RH, Ambu LN, Singleton I, Chikhi L, van Schaik CP, Krützen M.

BMC Genomics. 2014 Jan 10;15:16. doi: 10.1186/1471-2164-15-16.

PMID:
24405840
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Next generation genome-wide association tool: design and coverage of a high-throughput European-optimized SNP array.

Hoffmann TJ, Kvale MN, Hesselson SE, Zhan Y, Aquino C, Cao Y, Cawley S, Chung E, Connell S, Eshragh J, Ewing M, Gollub J, Henderson M, Hubbell E, Iribarren C, Kaufman J, Lao RZ, Lu Y, Ludwig D, Mathauda GK, McGuire W, Mei G, Miles S, Purdy MM, Quesenberry C, Ranatunga D, Rowell S, Sadler M, Shapero MH, Shen L, Shenoy TR, Smethurst D, Van den Eeden SK, Walter L, Wan E, Wearley R, Webster T, Wen CC, Weng L, Whitmer RA, Williams A, Wong SC, Zau C, Finn A, Schaefer C, Kwok PY, Risch N.

Genomics. 2011 Aug;98(2):79-89. doi: 10.1016/j.ygeno.2011.04.005. Epub 2011 Apr 30.

PMID:
21565264
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Implication of next-generation sequencing on association studies.

Siu H, Zhu Y, Jin L, Xiong M.

BMC Genomics. 2011 Jun 17;12:322. doi: 10.1186/1471-2164-12-322.

PMID:
21682891
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Systematic inference of copy-number genotypes from personal genome sequencing data reveals extensive olfactory receptor gene content diversity.

Waszak SM, Hasin Y, Zichner T, Olender T, Keydar I, Khen M, Stütz AM, Schlattl A, Lancet D, Korbel JO.

PLoS Comput Biol. 2010 Nov 11;6(11):e1000988. doi: 10.1371/journal.pcbi.1000988.

PMID:
21085617
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Design and coverage of high throughput genotyping arrays optimized for individuals of East Asian, African American, and Latino race/ethnicity using imputation and a novel hybrid SNP selection algorithm.

Hoffmann TJ, Zhan Y, Kvale MN, Hesselson SE, Gollub J, Iribarren C, Lu Y, Mei G, Purdy MM, Quesenberry C, Rowell S, Shapero MH, Smethurst D, Somkin CP, Van den Eeden SK, Walter L, Webster T, Whitmer RA, Finn A, Schaefer C, Kwok PY, Risch N.

Genomics. 2011 Dec;98(6):422-30. doi: 10.1016/j.ygeno.2011.08.007. Epub 2011 Aug 28.

PMID:
21903159
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Discovery of novel variants in genotyping arrays improves genotype retention and reduces ascertainment bias.

Didion JP, Yang H, Sheppard K, Fu CP, McMillan L, de Villena FP, Churchill GA.

BMC Genomics. 2012 Jan 19;13:34. doi: 10.1186/1471-2164-13-34.

PMID:
22260749
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Evaluating the effects of imputation on the power, coverage, and cost efficiency of genome-wide SNP platforms.

Anderson CA, Pettersson FH, Barrett JC, Zhuang JJ, Ragoussis J, Cardon LR, Morris AP.

Am J Hum Genet. 2008 Jul;83(1):112-9. doi: 10.1016/j.ajhg.2008.06.008. Epub 2008 Jun 26.

PMID:
18589396
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Imputation-based genomic coverage assessments of current human genotyping arrays.

Nelson SC, Doheny KF, Pugh EW, Romm JM, Ling H, Laurie CA, Browning SR, Weir BS, Laurie CC.

G3 (Bethesda). 2013 Oct 3;3(10):1795-807. doi: 10.1534/g3.113.007161.

PMID:
23979933
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Extremely low-coverage sequencing and imputation increases power for genome-wide association studies.

Pasaniuc B, Rohland N, McLaren PJ, Garimella K, Zaitlen N, Li H, Gupta N, Neale BM, Daly MJ, Sklar P, Sullivan PF, Bergen S, Moran JL, Hultman CM, Lichtenstein P, Magnusson P, Purcell SM, Haas DW, Liang L, Sunyaev S, Patterson N, de Bakker PI, Reich D, Price AL.

Nat Genet. 2012 May 20;44(6):631-5. doi: 10.1038/ng.2283.

PMID:
22610117
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

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
15.

Linkage disequilibrium based genotype calling from low-coverage shotgun sequencing reads.

Duitama J, Kennedy J, Dinakar S, Hernández Y, Wu Y, Măndoiu II.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S53. doi: 10.1186/1471-2105-12-S1-S53.

PMID:
21342586
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

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
17.

Imputation across genotyping arrays for genome-wide association studies: assessment of bias and a correction strategy.

Johnson EO, Hancock DB, Levy JL, Gaddis NC, Saccone NL, Bierut LJ, Page GP.

Hum Genet. 2013 May;132(5):509-22. doi: 10.1007/s00439-013-1266-7. Epub 2013 Jan 22.

PMID:
23334152
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

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
19.

Calibrating the performance of SNP arrays for whole-genome association studies.

Hao K, Schadt EE, Storey JD.

PLoS Genet. 2008 Jun 27;4(6):e1000109. doi: 10.1371/journal.pgen.1000109.

PMID:
18584036
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

SNP detection and prediction of variability between chicken lines using genome resequencing of DNA pools.

Marklund S, Carlborg O.

BMC Genomics. 2010 Nov 25;11:665. doi: 10.1186/1471-2164-11-665.

PMID:
21108801
[PubMed - indexed for MEDLINE]
Free PMC Article

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