Literature DB >> 18668208

Whole genome approaches to quantitative genetics.

Peter M Visscher1.   

Abstract

Apart from parent-offspring pairs and clones, relative pairs vary in the proportion of the genome that they share identical by descent. In the past, quantitative geneticists have used the expected value of sharing genes by descent to estimate genetic parameters and predict breeding values. With the possibility to genotype individuals for many markers across the genome it is now possible to empirically estimate the actual relationship between relatives. We review some of the theory underlying the variation in genetic identity, show applications to estimating genetic variance for height in humans and discuss other applications.

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Year:  2008        PMID: 18668208     DOI: 10.1007/s10709-008-9301-7

Source DB:  PubMed          Journal:  Genetica        ISSN: 0016-6707            Impact factor:   1.082


  19 in total

1.  Estimating variance components in natural populations using inferred relationships.

Authors:  S C Thomas; J M Pemberton; W G Hill
Journal:  Heredity (Edinb)       Date:  2000-04       Impact factor: 3.821

2.  Genome-wide identity-by-descent sharing among CEPH siblings.

Authors:  Alain Gagnon; Jan Beise; J W Vaupel
Journal:  Genet Epidemiol       Date:  2005-11       Impact factor: 2.135

Review 3.  The estimation of genetic relationships using molecular markers and their efficiency in estimating heritability in natural populations.

Authors:  Stuart C Thomas
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2005-07-29       Impact factor: 6.237

4.  Population genetics: separating nurture from nature in estimating heritability.

Authors:  S Xu
Journal:  Heredity (Edinb)       Date:  2006-06-28       Impact factor: 3.821

5.  Application of a recombination model in calculating the variance of sib pair genetic identity.

Authors:  N Risch; K Lange
Journal:  Ann Hum Genet       Date:  1979-10       Impact factor: 1.670

6.  Proportion of genome shared identical by descent by relatives: concept, computation, and applications.

Authors:  S W Guo
Journal:  Am J Hum Genet       Date:  1995-06       Impact factor: 11.025

7.  The distribution of the proportion of the genome which is homozygous by descent in inbred individuals.

Authors:  I R Franklin
Journal:  Theor Popul Biol       Date:  1977-02       Impact factor: 1.570

8.  The investigation of linkage between a quantitative trait and a marker locus.

Authors:  J K Haseman; R C Elston
Journal:  Behav Genet       Date:  1972-03       Impact factor: 2.805

9.  A second generation human haplotype map of over 3.1 million SNPs.

Authors:  Kelly A Frazer; Dennis G Ballinger; David R Cox; David A Hinds; Laura L Stuve; Richard A Gibbs; John W Belmont; Andrew Boudreau; Paul Hardenbol; Suzanne M Leal; Shiran Pasternak; David A Wheeler; Thomas D Willis; Fuli Yu; Huanming Yang; Changqing Zeng; Yang Gao; Haoran Hu; Weitao Hu; Chaohua Li; Wei Lin; Siqi Liu; Hao Pan; Xiaoli Tang; Jian Wang; Wei Wang; Jun Yu; Bo Zhang; Qingrun Zhang; Hongbin Zhao; Hui Zhao; Jun Zhou; Stacey B Gabriel; Rachel Barry; Brendan Blumenstiel; Amy Camargo; Matthew Defelice; Maura Faggart; Mary Goyette; Supriya Gupta; Jamie Moore; Huy Nguyen; Robert C Onofrio; Melissa Parkin; Jessica Roy; Erich Stahl; Ellen Winchester; Liuda Ziaugra; David Altshuler; Yan Shen; Zhijian Yao; Wei Huang; Xun Chu; Yungang He; Li Jin; Yangfan Liu; Yayun Shen; Weiwei Sun; Haifeng Wang; Yi Wang; Ying Wang; Xiaoyan Xiong; Liang Xu; Mary M Y Waye; Stephen K W Tsui; Hong Xue; J Tze-Fei Wong; Luana M Galver; Jian-Bing Fan; Kevin Gunderson; Sarah S Murray; Arnold R Oliphant; Mark S Chee; Alexandre Montpetit; Fanny Chagnon; Vincent Ferretti; Martin Leboeuf; Jean-François Olivier; Michael S Phillips; Stéphanie Roumy; Clémentine Sallée; Andrei Verner; Thomas J Hudson; Pui-Yan Kwok; Dongmei Cai; Daniel C Koboldt; Raymond D Miller; Ludmila Pawlikowska; Patricia Taillon-Miller; Ming Xiao; Lap-Chee Tsui; William Mak; You Qiang Song; Paul K H Tam; Yusuke Nakamura; Takahisa Kawaguchi; Takuya Kitamoto; Takashi Morizono; Atsushi Nagashima; Yozo Ohnishi; Akihiro Sekine; Toshihiro Tanaka; Tatsuhiko Tsunoda; Panos Deloukas; Christine P Bird; Marcos Delgado; Emmanouil T Dermitzakis; Rhian Gwilliam; Sarah Hunt; Jonathan Morrison; Don Powell; Barbara E Stranger; Pamela Whittaker; David R Bentley; Mark J Daly; Paul I W de Bakker; Jeff Barrett; Yves R Chretien; Julian Maller; Steve McCarroll; Nick Patterson; Itsik Pe'er; Alkes Price; Shaun Purcell; Daniel J Richter; Pardis Sabeti; Richa Saxena; Stephen F Schaffner; Pak C Sham; Patrick Varilly; David Altshuler; Lincoln D Stein; Lalitha Krishnan; Albert Vernon Smith; Marcela K Tello-Ruiz; Gudmundur A Thorisson; Aravinda Chakravarti; Peter E Chen; David J Cutler; Carl S Kashuk; Shin Lin; Gonçalo R Abecasis; Weihua Guan; Yun Li; Heather M Munro; Zhaohui Steve Qin; Daryl J Thomas; Gilean McVean; Adam Auton; Leonardo Bottolo; Niall Cardin; Susana Eyheramendy; Colin Freeman; Jonathan Marchini; Simon Myers; Chris Spencer; Matthew Stephens; Peter Donnelly; Lon R Cardon; Geraldine Clarke; David M Evans; Andrew P Morris; Bruce S Weir; Tatsuhiko Tsunoda; James C Mullikin; Stephen T Sherry; Michael Feolo; Andrew Skol; Houcan Zhang; Changqing Zeng; Hui Zhao; Ichiro Matsuda; Yoshimitsu Fukushima; Darryl R Macer; Eiko Suda; Charles N Rotimi; Clement A Adebamowo; Ike Ajayi; Toyin Aniagwu; Patricia A Marshall; Chibuzor Nkwodimmah; Charmaine D M Royal; Mark F Leppert; Missy Dixon; Andy Peiffer; Renzong Qiu; Alastair Kent; Kazuto Kato; Norio Niikawa; Isaac F Adewole; Bartha M Knoppers; Morris W Foster; Ellen Wright Clayton; Jessica Watkin; Richard A Gibbs; John W Belmont; Donna Muzny; Lynne Nazareth; Erica Sodergren; George M Weinstock; David A Wheeler; Imtaz Yakub; Stacey B Gabriel; Robert C Onofrio; Daniel J Richter; Liuda Ziaugra; Bruce W Birren; Mark J Daly; David Altshuler; Richard K Wilson; Lucinda L Fulton; Jane Rogers; John Burton; Nigel P Carter; Christopher M Clee; Mark Griffiths; Matthew C Jones; Kirsten McLay; Robert W Plumb; Mark T Ross; Sarah K Sims; David L Willey; Zhu Chen; Hua Han; Le Kang; Martin Godbout; John C Wallenburg; Paul L'Archevêque; Guy Bellemare; Koji Saeki; Hongguang Wang; Daochang An; Hongbo Fu; Qing Li; Zhen Wang; Renwu Wang; Arthur L Holden; Lisa D Brooks; Jean E McEwen; Mark S Guyer; Vivian Ota Wang; Jane L Peterson; Michael Shi; Jack Spiegel; Lawrence M Sung; Lynn F Zacharia; Francis S Collins; Karen Kennedy; Ruth Jamieson; John Stewart
Journal:  Nature       Date:  2007-10-18       Impact factor: 49.962

10.  Assumption-free estimation of heritability from genome-wide identity-by-descent sharing between full siblings.

Authors:  Peter M Visscher; Sarah E Medland; Manuel A R Ferreira; Katherine I Morley; Gu Zhu; Belinda K Cornes; Grant W Montgomery; Nicholas G Martin
Journal:  PLoS Genet       Date:  2006-03-24       Impact factor: 5.917

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  18 in total

1.  Statistical genetic issues for genome-wide association studies.

Authors:  Bruce S Weir
Journal:  Genome       Date:  2010-11       Impact factor: 2.166

2.  Unraveling additive from nonadditive effects using genomic relationship matrices.

Authors:  Patricio R Muñoz; Marcio F R Resende; Salvador A Gezan; Marcos Deon Vilela Resende; Gustavo de Los Campos; Matias Kirst; Dudley Huber; Gary F Peter
Journal:  Genetics       Date:  2014-10-15       Impact factor: 4.562

Review 3.  Q(ST)-F(ST) comparisons: evolutionary and ecological insights from genomic heterogeneity.

Authors:  Tuomas Leinonen; R J Scott McCairns; Robert B O'Hara; Juha Merilä
Journal:  Nat Rev Genet       Date:  2013-02-05       Impact factor: 53.242

4.  Variation in actual relationship among descendants of inbred individuals.

Authors:  W G Hill; B S Weir
Journal:  Genet Res (Camb)       Date:  2012-10       Impact factor: 1.588

5.  Variation in actual relationship as a consequence of Mendelian sampling and linkage.

Authors:  W G Hill; B S Weir
Journal:  Genet Res (Camb)       Date:  2011-02       Impact factor: 1.588

6.  Correlation between relatives given complete genotypes: from identity by descent to identity by function.

Authors:  Serge Sverdlov; Elizabeth A Thompson
Journal:  Theor Popul Biol       Date:  2013-07-11       Impact factor: 1.570

7.  The QTN program and the alleles that matter for evolution: all that's gold does not glitter.

Authors:  Matthew V Rockman
Journal:  Evolution       Date:  2011-11-06       Impact factor: 3.694

8.  Meiotic recombination shapes precision of pedigree- and marker-based estimates of inbreeding.

Authors:  U Knief; B Kempenaers; W Forstmeier
Journal:  Heredity (Edinb)       Date:  2016-11-02       Impact factor: 3.821

9.  Mechanisms of inbreeding avoidance in a wild primate.

Authors:  Allison A Galezo; Melina A Nolas; Arielle S Fogel; Raphael S Mututua; J Kinyua Warutere; I Long'ida Siodi; Jeanne Altmann; Elizabeth A Archie; Jenny Tung; Susan C Alberts
Journal:  Curr Biol       Date:  2022-02-24       Impact factor: 10.834

10.  Pedigree-free estimates of heritability in the wild: promising prospects for selfing populations.

Authors:  Laurene Gay; Mathieu Siol; Joelle Ronfort
Journal:  PLoS One       Date:  2013-06-25       Impact factor: 3.240

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