Literature DB >> 16921375

In silico method for inferring genotypes in pedigrees.

Joshua T Burdick1, Wei-Min Chen, Gonçalo R Abecasis, Vivian G Cheung.   

Abstract

Our genotype inference method combines sparse marker data from a linkage scan and high-resolution SNP genotypes for several individuals to infer genotypes for related individuals. We illustrate the method's utility by inferring over 53 million SNP genotypes for 78 children in the Centre d'Etude du Polymorphisme Humain families. The method can be used to obtain high-density genotypes in different family structures, including nuclear families commonly used in complex disease gene mapping studies.

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Year:  2006        PMID： 16921375      PMCID： PMC3005330          DOI： 10.1038/ng1863

Source DB:  PubMed          Journal:  Nat Genet        ISSN： 1061-4036            Impact factor:   38.330


  13 in total

1.  Allegro, a new computer program for multipoint linkage analysis.

Authors:  D F Gudbjartsson; K Jonasson; M L Frigge; A Kong
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  A general test of association for quantitative traits in nuclear families.

Authors:  G R Abecasis; L R Cardon; W O Cookson
Journal:  Am J Hum Genet       Date:  2000-01       Impact factor: 11.025

3.  Merlin--rapid analysis of dense genetic maps using sparse gene flow trees.

Authors:  Gonçalo R Abecasis; Stacey S Cherny; William O Cookson; Lon R Cardon
Journal:  Nat Genet       Date:  2001-12-03       Impact factor: 38.330

4.  The International HapMap Project.

Authors: 
Journal:  Nature       Date:  2003-12-18       Impact factor: 49.962

5.  A 3.9-centimorgan-resolution human single-nucleotide polymorphism linkage map and screening set.

Authors:  Tara C Matise; Ravi Sachidanandam; Andrew G Clark; Leonid Kruglyak; Ellen Wijsman; Jerzy Kakol; Steven Buyske; Buena Chui; Patrick Cohen; Claudia de Toma; Margaret Ehm; Stephen Glanowski; Chunsheng He; Jeremy Heil; Kyriacos Markianos; Ivy McMullen; Margaret A Pericak-Vance; Arkadiy Silbergleit; Lincoln Stein; Michael Wagner; Alexander F Wilson; Jeffrey D Winick; Emily S Winn-Deen; Carl T Yamashiro; Howard M Cann; Eric Lai; Arthur L Holden
Journal:  Am J Hum Genet       Date:  2003-07-03       Impact factor: 11.025

6.  Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays.

Authors:  Hajime Matsuzaki; Shoulian Dong; Halina Loi; Xiaojun Di; Guoying Liu; Earl Hubbell; Jane Law; Tam Berntsen; Monica Chadha; Henry Hui; Geoffrey Yang; Giulia C Kennedy; Teresa A Webster; Simon Cawley; P Sean Walsh; Keith W Jones; Stephen P A Fodor; Rui Mei
Journal:  Nat Methods       Date:  2004-11       Impact factor: 28.547

7.  A haplotype map of the human genome.

Authors: 
Journal:  Nature       Date:  2005-10-27       Impact factor: 49.962

8.  Descent graphs in pedigree analysis: applications to haplotyping, location scores, and marker-sharing statistics.

Authors:  E Sobel; K Lange
Journal:  Am J Hum Genet       Date:  1996-06       Impact factor: 11.025

9.  Parametric and nonparametric linkage analysis: a unified multipoint approach.

Authors:  L Kruglyak; M J Daly; M P Reeve-Daly; E S Lander
Journal:  Am J Hum Genet       Date:  1996-06       Impact factor: 11.025

10.  Pedigree tests of transmission disequilibrium.

Authors:  G R Abecasis; W O Cookson; L R Cardon
Journal:  Eur J Hum Genet       Date:  2000-07       Impact factor: 4.246
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  79 in total

1.  Nested association mapping for identification of functional markers.

Authors:  Baohong Guo; David A Sleper; William D Beavis
Journal:  Genetics       Date:  2010-06-15       Impact factor: 4.562

Review 2.  Genotype imputation for genome-wide association studies.

Authors:  Jonathan Marchini; Bryan Howie
Journal:  Nat Rev Genet       Date:  2010-07       Impact factor: 53.242

3.  Genome-wide scan identifies a quantitative trait locus at 4p15.3 for serum urate.

Authors:  Nik Cummings; Thomas D Dyer; Navaratnam Kotea; Sudhir Kowlessur; Pierrot Chitson; Paul Zimmet; John Blangero; Jeremy B M Jowett
Journal:  Eur J Hum Genet       Date:  2010-06-30       Impact factor: 4.246

4.  Genetic design and statistical power of nested association mapping in maize.

Authors:  Jianming Yu; James B Holland; Michael D McMullen; Edward S Buckler
Journal:  Genetics       Date:  2008-01       Impact factor: 4.562

5.  Genomic selection using low-density marker panels.

Authors:  D Habier; R L Fernando; J C M Dekkers
Journal:  Genetics       Date:  2009-03-18       Impact factor: 4.562

6.  Power of family-based association designs to detect rare variants in large pedigrees using imputed genotypes.

Authors:  Mohamad Saad; Ellen M Wijsman
Journal:  Genet Epidemiol       Date:  2013-11-15       Impact factor: 2.135

7.  Family-based association tests for genomewide association scans.

Authors:  Wei-Min Chen; Goncalo R Abecasis
Journal:  Am J Hum Genet       Date:  2007-09-18       Impact factor: 11.025

8.  Modeling of identity-by-descent processes along a chromosome between haplotypes and their genotyped ancestors.

Authors:  Tom Druet; Frederic Paul Farnir
Journal:  Genetics       Date:  2011-03-24       Impact factor: 4.562

Review 9.  Haplotyping methods for pedigrees.

Authors:  Guimin Gao; David B Allison; Ina Hoeschele
Journal:  Hum Hered       Date:  2009-01-27       Impact factor: 0.444

10.  Genome-wide discovery of maternal effect variants.

Authors:  Jack W Kent; Charles P Peterson; Thomas D Dyer; Laura Almasy; John Blangero
Journal:  BMC Proc       Date:  2009-12-15
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