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Items: 1 to 20 of 99

1.

eALPS: estimating abundance levels in pooled sequencing using available genotyping data.

Eskin I, Hormozdiari F, Conde L, Riby J, Skibola CF, Eskin E, Halperin E.

J Comput Biol. 2013 Nov;20(11):861-77. doi: 10.1089/cmb.2013.0105. Epub 2013 Oct 21.

2.

Quantitative group testing-based overlapping pool sequencing to identify rare variant carriers.

Cao CC, Li C, Sun X.

BMC Bioinformatics. 2014 Jun 17;15:195. doi: 10.1186/1471-2105-15-195.

3.
4.

Genotyping common and rare variation using overlapping pool sequencing.

He D, Zaitlen N, Pasaniuc B, Eskin E, Halperin E.

BMC Bioinformatics. 2011;12 Suppl 6:S2. doi: 10.1186/1471-2105-12-S6-S2. Epub 2011 Jul 28.

5.

Weighted pooling--practical and cost-effective techniques for pooled high-throughput sequencing.

Golan D, Erlich Y, Rosset S.

Bioinformatics. 2012 Jun 15;28(12):i197-206. doi: 10.1093/bioinformatics/bts208.

6.

Analysis and optimal design for association studies using next-generation sequencing with case-control pools.

Liang WE, Thomas DC, Conti DV.

Genet Epidemiol. 2012 Dec;36(8):870-81. doi: 10.1002/gepi.21681. Epub 2012 Sep 12.

7.

Design of association studies with pooled or un-pooled next-generation sequencing data.

Kim SY, Li Y, Guo Y, Li R, Holmkvist J, Hansen T, Pedersen O, Wang J, Nielsen R.

Genet Epidemiol. 2010 Jul;34(5):479-91. doi: 10.1002/gepi.20501.

8.

Comparison of genotyping using pooled DNA samples (allelotyping) and individual genotyping using the affymetrix genome-wide human SNP array 6.0.

Teumer A, Ernst FD, Wiechert A, Uhr K, Nauck M, Petersmann A, Völzke H, Völker U, Homuth G.

BMC Genomics. 2013 Jul 26;14:506. doi: 10.1186/1471-2164-14-506.

9.

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.

10.

Allele frequency calibration for SNP based genotyping of DNA pools: A regression based local-global error fusion method.

Rahman A, Hellicar A, Smith D, Henshall JM.

Comput Biol Med. 2015 Jun;61:48-55. doi: 10.1016/j.compbiomed.2015.03.020. Epub 2015 Mar 26.

PMID:
25863000
11.

Estimating the effect of SNP genotype on quantitative traits from pooled DNA samples.

Henshall JM, Hawken RJ, Dominik S, Barendse W.

Genet Sel Evol. 2012 Apr 17;44:12. doi: 10.1186/1297-9686-44-12.

12.

Estimating genomic heritabilities at the level of family-pool samples of perennial ryegrass using genotyping-by-sequencing.

Ashraf BH, Byrne S, Fé D, Czaban A, Asp T, Pedersen MG, Lenk I, Roulund N, Didion T, Jensen CS, Jensen J, Janss LL.

Theor Appl Genet. 2016 Jan;129(1):45-52. doi: 10.1007/s00122-015-2607-9. Epub 2015 Sep 25.

13.

SNPest: a probabilistic graphical model for estimating genotypes.

Lindgreen S, Krogh A, Pedersen JS.

BMC Res Notes. 2014 Oct 7;7:698. doi: 10.1186/1756-0500-7-698.

14.

Leveraging reads that span multiple single nucleotide polymorphisms for haplotype inference from sequencing data.

Yang WY, Hormozdiari F, Wang Z, He D, Pasaniuc B, Eskin E.

Bioinformatics. 2013 Sep 15;29(18):2245-52. doi: 10.1093/bioinformatics/btt386. Epub 2013 Jul 3.

15.

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.

16.

Assessing single nucleotide variant detection and genotype calling on whole-genome sequenced individuals.

Cheng AY, Teo YY, Ong RT.

Bioinformatics. 2014 Jun 15;30(12):1707-13. doi: 10.1093/bioinformatics/btu067. Epub 2014 Feb 19.

PMID:
24558117
17.

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.

18.

Estimating allele frequency from next-generation sequencing of pooled mitochondrial DNA samples.

Wang T, Pradhan K, Ye K, Wong LJ, Rohan TE.

Front Genet. 2011 Aug 17;2:51. doi: 10.3389/fgene.2011.00051. eCollection 2011.

19.

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. Erratum in: Bioinformatics. 2016 Oct 15;32(20):3213.

20.

Overlapping pools for high-throughput targeted resequencing.

Prabhu S, Pe'er I.

Genome Res. 2009 Jul;19(7):1254-61. doi: 10.1101/gr.088559.108. Epub 2009 May 15.

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