Niall Cardin

Niall Cardin

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Niall Cardin

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Mutational Landscape of Aggressive Prostate Tumors in African American Men.

Cancer Res 2016 04 26;76(7):1860-8. Epub 2016 Feb 26.

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California. Department of Urology, University of California San Francisco, San Francisco, California. Institute for Human Genetics, University of California San Francisco, San Francisco, California. Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, California.

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http://cancerres.aacrjournals.org/content/early/2016/02/26/0
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http://cancerres.aacrjournals.org/content/76/7/1860.full.pdf
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http://cancerres.aacrjournals.org/content/early/2016/02/26/0
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http://cancerres.aacrjournals.org/cgi/doi/10.1158/0008-5472.
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http://dx.doi.org/10.1158/0008-5472.CAN-15-1787DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4772140PMC
April 2016

Does accounting for gene-environment interactions help uncover association between rare variants and complex diseases?

Hum Hered 2012 11;74(3-4):205-14. Epub 2013 Apr 11.

Department of Epidemiology and Biostatistics and Institute for Human Genetics, University of California, San Francisco, CA, USA.

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http://dx.doi.org/10.1159/000346825DOI Listing
October 2013

Joint association testing of common and rare genetic variants using hierarchical modeling.

Genet Epidemiol 2012 Sep 16;36(6):642-51. Epub 2012 Jul 16.

Department of Epidemiology and Biostatistics, Institute for Human Genetics, University of California, San Francisco, California 94158-9001, USA.

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http://doi.wiley.com/10.1002/gepi.21659
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http://dx.doi.org/10.1002/gepi.21659DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4339046PMC
September 2012

Bayesian hierarchical mixture modeling to assign copy number from a targeted CNV array.

Genet Epidemiol 2011 Sep 18;35(6):536-48. Epub 2011 Jul 18.

Department of Statistics, University of Oxford, 1 South Parks Road, Oxford, United Kingdom.

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http://dx.doi.org/10.1002/gepi.20604DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3159791PMC
September 2011

Genome-wide association study of CNVs in 16,000 cases of eight common diseases and 3,000 shared controls.

Authors:
Nick Craddock Matthew E Hurles Niall Cardin Richard D Pearson Vincent Plagnol Samuel Robson Damjan Vukcevic Chris Barnes Donald F Conrad Eleni Giannoulatou Chris Holmes Jonathan L Marchini Kathy Stirrups Martin D Tobin Louise V Wain Chris Yau Jan Aerts Tariq Ahmad T Daniel Andrews Hazel Arbury Anthony Attwood Adam Auton Stephen G Ball Anthony J Balmforth Jeffrey C Barrett Inês Barroso Anne Barton Amanda J Bennett Sanjeev Bhaskar Katarzyna Blaszczyk John Bowes Oliver J Brand Peter S Braund Francesca Bredin Gerome Breen Morris J Brown Ian N Bruce Jaswinder Bull Oliver S Burren John Burton Jake Byrnes Sian Caesar Chris M Clee Alison J Coffey John M C Connell Jason D Cooper Anna F Dominiczak Kate Downes Hazel E Drummond Darshna Dudakia Andrew Dunham Bernadette Ebbs Diana Eccles Sarah Edkins Cathryn Edwards Anna Elliot Paul Emery David M Evans Gareth Evans Steve Eyre Anne Farmer I Nicol Ferrier Lars Feuk Tomas Fitzgerald Edward Flynn Alistair Forbes Liz Forty Jayne A Franklyn Rachel M Freathy Polly Gibbs Paul Gilbert Omer Gokumen Katherine Gordon-Smith Emma Gray Elaine Green Chris J Groves Detelina Grozeva Rhian Gwilliam Anita Hall Naomi Hammond Matt Hardy Pile Harrison Neelam Hassanali Husam Hebaishi Sarah Hines Anne Hinks Graham A Hitman Lynne Hocking Eleanor Howard Philip Howard Joanna M M Howson Debbie Hughes Sarah Hunt John D Isaacs Mahim Jain Derek P Jewell Toby Johnson Jennifer D Jolley Ian R Jones Lisa A Jones George Kirov Cordelia F Langford Hana Lango-Allen G Mark Lathrop James Lee Kate L Lee Charlie Lees Kevin Lewis Cecilia M Lindgren Meeta Maisuria-Armer Julian Maller John Mansfield Paul Martin Dunecan C O Massey Wendy L McArdle Peter McGuffin Kirsten E McLay Alex Mentzer Michael L Mimmack Ann E Morgan Andrew P Morris Craig Mowat Simon Myers William Newman Elaine R Nimmo Michael C O'Donovan Abiodun Onipinla Ifejinelo Onyiah Nigel R Ovington Michael J Owen Kimmo Palin Kirstie Parnell David Pernet John R B Perry Anne Phillips Dalila Pinto Natalie J Prescott Inga Prokopenko Michael A Quail Suzanne Rafelt Nigel W Rayner Richard Redon David M Reid Renwick Susan M Ring Neil Robertson Ellie Russell David St Clair Jennifer G Sambrook Jeremy D Sanderson Helen Schuilenburg Carol E Scott Richard Scott Sheila Seal Sue Shaw-Hawkins Beverley M Shields Matthew J Simmonds Debbie J Smyth Elilan Somaskantharajah Katarina Spanova Sophia Steer Jonathan Stephens Helen E Stevens Millicent A Stone Zhan Su Deborah P M Symmons John R Thompson Wendy Thomson Mary E Travers Clare Turnbull Armand Valsesia Mark Walker Neil M Walker Chris Wallace Margaret Warren-Perry Nicholas A Watkins John Webster Michael N Weedon Anthony G Wilson Matthew Woodburn B Paul Wordsworth Allan H Young Eleftheria Zeggini Nigel P Carter Timothy M Frayling Charles Lee Gil McVean Patricia B Munroe Aarno Palotie Stephen J Sawcer Stephen W Scherer David P Strachan Chris Tyler-Smith Matthew A Brown Paul R Burton Mark J Caulfield Alastair Compston Martin Farrall Stephen C L Gough Alistair S Hall Andrew T Hattersley Adrian V S Hill Christopher G Mathew Marcus Pembrey Jack Satsangi Michael R Stratton Jane Worthington Panos Deloukas Audrey Duncanson Dominic P Kwiatkowski Mark I McCarthy Willem Ouwehand Miles Parkes Nazneen Rahman John A Todd Nilesh J Samani Peter Donnelly

Nature 2010 Apr;464(7289):713-20

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http://dx.doi.org/10.1038/nature08979DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2892339PMC
April 2010

Association scan of 14,500 nonsynonymous SNPs in four diseases identifies autoimmunity variants.

Authors:
Paul R Burton David G Clayton Lon R Cardon Nick Craddock Panos Deloukas Audrey Duncanson Dominic P Kwiatkowski Mark I McCarthy Willem H Ouwehand Nilesh J Samani John A Todd Peter Donnelly Jeffrey C Barrett Dan Davison Doug Easton David M Evans Hin-Tak Leung Jonathan L Marchini Andrew P Morris Chris C A Spencer Martin D Tobin Antony P Attwood James P Boorman Barbara Cant Ursula Everson Judith M Hussey Jennifer D Jolley Alexandra S Knight Kerstin Koch Elizabeth Meech Sarah Nutland Christopher V Prowse Helen E Stevens Niall C Taylor Graham R Walters Neil M Walker Nicholas A Watkins Thilo Winzer Richard W Jones Wendy L McArdle Susan M Ring David P Strachan Marcus Pembrey Gerome Breen David St Clair Sian Caesar Katharine Gordon-Smith Lisa Jones Christine Fraser Elaine K Green Detelina Grozeva Marian L Hamshere Peter A Holmans Ian R Jones George Kirov Valentina Moskivina Ivan Nikolov Michael C O'Donovan Michael J Owen David A Collier Amanda Elkin Anne Farmer Richard Williamson Peter McGuffin Allan H Young I Nicol Ferrier Stephen G Ball Anthony J Balmforth Jennifer H Barrett Timothy D Bishop Mark M Iles Azhar Maqbool Nadira Yuldasheva Alistair S Hall Peter S Braund Richard J Dixon Massimo Mangino Suzanne Stevens John R Thompson Francesca Bredin Mark Tremelling Miles Parkes Hazel Drummond Charles W Lees Elaine R Nimmo Jack Satsangi Sheila A Fisher Alastair Forbes Cathryn M Lewis Clive M Onnie Natalie J Prescott Jeremy Sanderson Christopher G Matthew Jamie Barbour M Khalid Mohiuddin Catherine E Todhunter John C Mansfield Tariq Ahmad Fraser R Cummings Derek P Jewell John Webster Morris J Brown Mark G Lathrop John Connell Anna Dominiczak Carolina A Braga Marcano Beverley Burke Richard Dobson Johannie Gungadoo Kate L Lee Patricia B Munroe Stephen J Newhouse Abiodun Onipinla Chris Wallace Mingzhan Xue Mark Caulfield Martin Farrall Anne Barton Ian N Bruce Hannah Donovan Steve Eyre Paul D Gilbert Samantha L Hilder Anne M Hinks Sally L John Catherine Potter Alan J Silman Deborah P M Symmons Wendy Thomson Jane Worthington David B Dunger Barry Widmer Timothy M Frayling Rachel M Freathy Hana Lango John R B Perry Beverley M Shields Michael N Weedon Andrew T Hattersley Graham A Hitman Mark Walker Kate S Elliott Christopher J Groves Cecilia M Lindgren Nigel W Rayner Nicolas J Timpson Eleftheria Zeggini Melanie Newport Giorgio Sirugo Emily Lyons Fredrik Vannberg Adrian V S Hill Linda A Bradbury Claire Farrar Jennifer J Pointon Paul Wordsworth Matthew A Brown Jayne A Franklyn Joanne M Heward Matthew J Simmonds Stephen C L Gough Sheila Seal Michael R Stratton Nazneen Rahman Maria Ban An Goris Stephen J Sawcer Alastair Compston David Conway Muminatou Jallow Melanie Newport Giorgio Sirugo Kirk A Rockett Suzannah J Bumpstead Amy Chaney Kate Downes Mohammed J R Ghori Rhian Gwilliam Sarah E Hunt Michael Inouye Andrew Keniry Emma King Ralph McGinnis Simon Potter Rathi Ravindrarajah Pamela Whittaker Claire Widden David Withers Niall J Cardin Dan Davison Teresa Ferreira Joanne Pereira-Gale Ingeleif B Hallgrimsdo'ttir Bryan N Howie Zhan Su Yik Ying Teo Damjan Vukcevic David Bentley Matthew A Brown Alastair Compston Martin Farrall Alistair S Hall Andrew T Hattersley Adrian V S Hill Miles Parkes Marcus Pembrey Michael R Stratton Sarah L Mitchell Paul R Newby Oliver J Brand Jackie Carr-Smith Simon H S Pearce R McGinnis A Keniry P Deloukas John D Reveille Xiaodong Zhou Anne-Marie Sims Alison Dowling Jacqueline Taylor Tracy Doan John C Davis Laurie Savage Michael M Ward Thomas L Learch Michael H Weisman Mathew Brown

Nat Genet 2007 Nov 21;39(11):1329-37. Epub 2007 Oct 21.

Genetic Epidemiology Group, Department of Health Sciences, University of Leicester, Adrian Building, University Road, Leicester LE1 7RH, UK.

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http://dx.doi.org/10.1038/ng.2007.17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2680141PMC
November 2007

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

Nature 2007 Oct;449(7164):851-61

The Scripps Research Institute, 10550 North Torrey Pines Road MEM275, La Jolla, California 92037, USA.

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https://www.genome.gov/Pages/Newsroom/CurrentNewsReleases/In
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http://www.nature.com/doifinder/10.1038/nature06258
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http://dx.doi.org/10.1038/nature06258DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2689609PMC
October 2007

Genome-wide detection and characterization of positive selection in human populations.

Authors:
Pardis C Sabeti Patrick Varilly Ben Fry Jason Lohmueller Elizabeth Hostetter Chris Cotsapas Xiaohui Xie Elizabeth H Byrne Steven A McCarroll Rachelle Gaudet Stephen F Schaffner Eric S Lander 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 Todd A Johnson 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

Nature 2007 Oct;449(7164):913-8

Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02139, USA.

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https://www.genome.gov/Pages/Newsroom/CurrentNewsReleases/Le
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http://www.nature.com/doifinder/10.1038/nature06250
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http://dx.doi.org/10.1038/nature06250DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2687721PMC
October 2007

Approximating the coalescent with recombination.

Philos Trans R Soc Lond B Biol Sci 2005 Jul;360(1459):1387-93

Department of Statistics, University of Oxford, 1 South Parks Road, Oxford, OX1 3TG, UK.

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http://dx.doi.org/10.1098/rstb.2005.1673DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1569517PMC
July 2005