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Items: 1 to 20 of 101

1.

Inference of identity by descent in population isolates and optimal sequencing studies.

Glodzik D, Navarro P, Vitart V, Hayward C, McQuillan R, Wild SH, Dunlop MG, Rudan I, Campbell H, Haley C, Wright AF, Wilson JF, McKeigue P.

Eur J Hum Genet. 2013 Oct;21(10):1140-5. doi: 10.1038/ejhg.2012.307. Epub 2013 Jan 30.

2.

Improving the accuracy and efficiency of identity-by-descent detection in population data.

Browning BL, Browning SR.

Genetics. 2013 Jun;194(2):459-71. doi: 10.1534/genetics.113.150029. Epub 2013 Mar 27.

3.

Low-pass genome-wide sequencing and variant inference using identity-by-descent in an isolated human population.

Gusev A, Shah MJ, Kenny EE, Ramachandran A, Lowe JK, Salit J, Lee CC, Levandowsky EC, Weaver TN, Doan QC, Peckham HE, McLaughlin SF, Lyons MR, Sheth VN, Stoffel M, De La Vega FM, Friedman JM, Breslow JL, Pe'er I.

Genetics. 2012 Feb;190(2):679-89. doi: 10.1534/genetics.111.134874. Epub 2011 Nov 30.

4.

Genotype calling and haplotyping in parent-offspring trios.

Chen W, Li B, Zeng Z, Sanna S, Sidore C, Busonero F, Kang HM, Li Y, Abecasis GR.

Genome Res. 2013 Jan;23(1):142-51. doi: 10.1101/gr.142455.112. Epub 2012 Oct 11.

5.

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.

6.

A fast and accurate method for detection of IBD shared haplotypes in genome-wide SNP data.

Bjelland DW, Lingala U, Patel PS, Jones M, Keller MC.

Eur J Hum Genet. 2017 May;25(5):617-624. doi: 10.1038/ejhg.2017.6. Epub 2017 Feb 8.

PMID:
28176766
7.

Inference of relationships in population data using identity-by-descent and identity-by-state.

Stevens EL, Heckenberg G, Roberson ED, Baugher JD, Downey TJ, Pevsner J.

PLoS Genet. 2011 Sep;7(9):e1002287. doi: 10.1371/journal.pgen.1002287. Epub 2011 Sep 22.

8.

Identity-by-descent-based phasing and imputation in founder populations using graphical models.

Palin K, Campbell H, Wright AF, Wilson JF, Durbin R.

Genet Epidemiol. 2011 Dec;35(8):853-60. doi: 10.1002/gepi.20635. Epub 2011 Oct 17.

9.

Accurate imputation of rare and common variants in a founder population from a small number of sequenced individuals.

Uricchio LH, Chong JX, Ross KD, Ober C, Nicolae DL.

Genet Epidemiol. 2012 May;36(4):312-9. doi: 10.1002/gepi.21623. Epub 2012 Mar 28.

10.

Reducing pervasive false-positive identical-by-descent segments detected by large-scale pedigree analysis.

Durand EY, Eriksson N, McLean CY.

Mol Biol Evol. 2014 Aug;31(8):2212-22. doi: 10.1093/molbev/msu151. Epub 2014 Apr 30.

11.

Integrating dilution-based sequencing and population genotypes for single individual haplotyping.

Matsumoto H, Kiryu H.

BMC Genomics. 2014 Aug 28;15:733. doi: 10.1186/1471-2164-15-733.

12.

Combinatorial Conflicting Homozygosity (CCH) analysis enables the rapid identification of shared genomic regions in the presence of multiple phenocopies.

Levine AP, Connor TM, Oygar DD, Neild GH, Segal AW, Maxwell PH, Gale DP.

BMC Genomics. 2015 Mar 10;16:163. doi: 10.1186/s12864-015-1360-4.

13.

A comparison of different algorithms for phasing haplotypes using Holstein cattle genotypes and pedigree data.

Miar Y, Sargolzaei M, Schenkel FS.

J Dairy Sci. 2017 Apr;100(4):2837-2849. doi: 10.3168/jds.2016-11590. Epub 2017 Feb 1.

PMID:
28161175
14.

Whole-genome characterization in pedigreed non-human primates using genotyping-by-sequencing (GBS) and imputation.

Bimber BN, Raboin MJ, Letaw J, Nevonen KA, Spindel JE, McCouch SR, Cervera-Juanes R, Spindel E, Carbone L, Ferguson B, Vinson A.

BMC Genomics. 2016 Aug 24;17:676. doi: 10.1186/s12864-016-2966-x.

15.

Detecting identity by descent and homozygosity mapping in whole-exome sequencing data.

Zhuang Z, Gusev A, Cho J, Pe'er I.

PLoS One. 2012;7(10):e47618. doi: 10.1371/journal.pone.0047618. Epub 2012 Oct 11.

16.

Leveraging Identity-by-Descent for Accurate Genotype Inference in Family Sequencing Data.

Li B, Wei Q, Zhan X, Zhong X, Chen W, Li C, Haines J.

PLoS Genet. 2015 Jun 4;11(6):e1005271. doi: 10.1371/journal.pgen.1005271. eCollection 2015 Jun.

17.

Parente2: a fast and accurate method for detecting identity by descent.

Rodriguez JM, Bercovici S, Huang L, Frostig R, Batzoglou S.

Genome Res. 2015 Feb;25(2):280-9. doi: 10.1101/gr.173641.114. Epub 2014 Oct 1.

18.

A combined long-range phasing and long haplotype imputation method to impute phase for SNP genotypes.

Hickey JM, Kinghorn BP, Tier B, Wilson JF, Dunstan N, van der Werf JH.

Genet Sel Evol. 2011 Mar 10;43:12. doi: 10.1186/1297-9686-43-12.

19.

Next generation sequencing of SNPs using the HID-Ion AmpliSeq™ Identity Panel on the Ion Torrent PGM™ platform.

Guo F, Zhou Y, Song H, Zhao J, Shen H, Zhao B, Liu F, Jiang X.

Forensic Sci Int Genet. 2016 Nov;25:73-84. doi: 10.1016/j.fsigen.2016.07.021. Epub 2016 Jul 29.

PMID:
27500651
20.

Hap-seq: an optimal algorithm for haplotype phasing with imputation using sequencing data.

He D, Han B, Eskin E.

J Comput Biol. 2013 Feb;20(2):80-92. doi: 10.1089/cmb.2012.0091.

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