Literature DB >> 22200770

Improved imputation of common and uncommon SNPs with a new reference set.

Zhaoming Wang, Kevin B Jacobs, Meredith Yeager, Amy Hutchinson, Joshua Sampson, Nilanjan Chatterjee, Demetrius Albanes, Sonja I Berndt, Charles C Chung, W Ryan Diver, Susan M Gapstur, Lauren R Teras, Christopher A Haiman, Brian E Henderson, Daniel Stram, Xiang Deng, Ann W Hsing, Jarmo Virtamo, Michael A Eberle, Jennifer L Stone, Mark P Purdue, Phil Taylor, Margaret Tucker, Stephen J Chanock.   

Abstract

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Year:  2011        PMID: 22200770      PMCID: PMC3276401          DOI: 10.1038/ng.1044

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


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  11 in total

Review 1.  Genotype imputation for genome-wide association studies.

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

2.  A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals.

Authors:  Brian L Browning; Sharon R Browning
Journal:  Am J Hum Genet       Date:  2009-02-05       Impact factor: 11.025

3.  Estimation of effect size distribution from genome-wide association studies and implications for future discoveries.

Authors:  Ju-Hyun Park; Sholom Wacholder; Mitchell H Gail; Ulrike Peters; Kevin B Jacobs; Stephen J Chanock; Nilanjan Chatterjee
Journal:  Nat Genet       Date:  2010-06-20       Impact factor: 38.330

4.  Design of the Prostate, Lung, Colorectal and Ovarian (PLCO) Cancer Screening Trial.

Authors:  P C Prorok; G L Andriole; R S Bresalier; S S Buys; D Chia; E D Crawford; R Fogel; E P Gelmann; F Gilbert; M A Hasson; R B Hayes; C C Johnson; J S Mandel; A Oberman; B O'Brien; M M Oken; S Rafla; D Reding; W Rutt; J L Weissfeld; L Yokochi; J K Gohagan
Journal:  Control Clin Trials       Date:  2000-12

5.  The American Cancer Society Cancer Prevention Study II Nutrition Cohort: rationale, study design, and baseline characteristics.

Authors:  Eugenia E Calle; Carmen Rodriguez; Eric J Jacobs; M Lyn Almon; Ann Chao; Marjorie L McCullough; Heather S Feigelson; Michael J Thun
Journal:  Cancer       Date:  2002-05-01       Impact factor: 6.860

6.  A multiethnic cohort in Hawaii and Los Angeles: baseline characteristics.

Authors:  L N Kolonel; B E Henderson; J H Hankin; A M Nomura; L R Wilkens; M C Pike; D O Stram; K R Monroe; M E Earle; F S Nagamine
Journal:  Am J Epidemiol       Date:  2000-02-15       Impact factor: 4.897

7.  A map of human genome variation from population-scale sequencing.

Authors:  Gonçalo R Abecasis; David Altshuler; Adam Auton; Lisa D Brooks; Richard M Durbin; Richard A Gibbs; Matt E Hurles; Gil A McVean
Journal:  Nature       Date:  2010-10-28       Impact factor: 49.962

8.  The alpha-tocopherol, beta-carotene lung cancer prevention study: design, methods, participant characteristics, and compliance. The ATBC Cancer Prevention Study Group.

Authors: 
Journal:  Ann Epidemiol       Date:  1994-01       Impact factor: 3.797

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.  A flexible and accurate genotype imputation method for the next generation of genome-wide association studies.

Authors:  Bryan N Howie; Peter Donnelly; Jonathan Marchini
Journal:  PLoS Genet       Date:  2009-06-19       Impact factor: 5.917

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  30 in total

1.  Genotypic variants at 2q33 and risk of esophageal squamous cell carcinoma in China: a meta-analysis of genome-wide association studies.

Authors:  Christian C Abnet; Zhaoming Wang; Xin Song; Nan Hu; Fu-You Zhou; Neal D Freedman; Xue-Min Li; Kai Yu; Xiao-Ou Shu; Jian-Min Yuan; Wei Zheng; Sanford M Dawsey; Linda M Liao; Maxwell P Lee; Ti Ding; You-Lin Qiao; Yu-Tang Gao; Woon-Puay Koh; Yong-Bing Xiang; Ze-Zhong Tang; Jin-Hu Fan; Charles C Chung; Chaoyu Wang; William Wheeler; Meredith Yeager; Jeff Yuenger; Amy Hutchinson; Kevin B Jacobs; Carol A Giffen; Laurie Burdett; Joseph F Fraumeni; Margaret A Tucker; Wong-Ho Chow; Xue-Ke Zhao; Jiang-Man Li; Ai-Li Li; Liang-Dan Sun; Wu Wei; Ji-Lin Li; Peng Zhang; Hong-Lei Li; Wen-Yan Cui; Wei-Peng Wang; Zhi-Cai Liu; Xia Yang; Wen-Jing Fu; Ji-Li Cui; Hong-Li Lin; Wen-Liang Zhu; Min Liu; Xi Chen; Jie Chen; Li Guo; Jing-Jing Han; Sheng-Li Zhou; Jia Huang; Yue Wu; Chao Yuan; Jing Huang; Ai-Fang Ji; Jian-Wei Kul; Zhong-Min Fan; Jian-Po Wang; Dong-Yun Zhang; Lian-Qun Zhang; Wei Zhang; Yuan-Fang Chen; Jing-Li Ren; Xiu-Min Li; Jin-Cheng Dong; Guo-Lan Xing; Zhi-Gang Guo; Jian-Xue Yang; Yi-Ming Mao; Yuan Yuan; Er-Tao Guo; Wei Zhang; Zhi-Chao Hou; Jing Liu; Yan Li; Sa Tang; Jia Chang; Xiu-Qin Peng; Min Han; Wan-Li Yin; Ya-Li Liu; Yan-Long Hu; Yu Liu; Liu-Qin Yang; Fu-Guo Zhu; Xiu-Feng Yang; Xiao-Shan Feng; Zhou Wang; Yin Li; She-Gan Gao; Hai-Lin Liu; Ling Yuan; Yan Jin; Yan-Rui Zhang; Ilyar Sheyhidin; Feng Li; Bao-Ping Chen; Shu-Wei Ren; Bin Liu; Dan Li; Gao-Fu Zhang; Wen-Bin Yue; Chang-Wei Feng; Qirenwang Qige; Jian-Ting Zhao; Wen-Jun Yang; Guang-Yan Lei; Long-Qi Chen; En-Min Li; Li-Yan Xu; Zhi-Yong Wu; Zhi-Qin Bao; Ji-Li Chen; Xian-Chang Li; Xiang Zhuang; Ying-Fa Zhou; Xian-Bo Zuo; Zi-Ming Dong; Lu-Wen Wang; Xue-Pin Fan; Jin Wang; Qi Zhou; Guo-Shun Ma; Qin-Xian Zhang; Hai Liu; Xin-Ying Jian; Sin-Yong Lian; Jin-Sheng Wang; Fu-Bao Chang; Chang-Dong Lu; Jian-Jun Miao; Zhi-Guo Chen; Ran Wang; Ming Guo; Zeng-Lin Fan; Ping Tao; Tai-Jing Liu; Jin-Chang Wei; Qing-Peng Kong; Lei Fan; Xian-Zeng Wang; Fu-Sheng Gao; Tian-Yun Wang; Dong Xie; Li Wang; Shu-Qing Chen; Wan-Cai Yang; Jun-Yan Hong; Liang Wang; Song-Liang Qiu; Alisa M Goldstein; Zhi-Qing Yuan; Stephen J Chanock; Xue-Jun Zhang; Philip R Taylor; Li-Dong Wang
Journal:  Hum Mol Genet       Date:  2012-02-08       Impact factor: 6.150

2.  Population-specific genotype imputations using minimac or IMPUTE2.

Authors:  Elisabeth M van Leeuwen; Alexandros Kanterakis; Patrick Deelen; Mathijs V Kattenberg; P Eline Slagboom; Paul I W de Bakker; Cisca Wijmenga; Morris A Swertz; Dorret I Boomsma; Cornelia M van Duijn; Lennart C Karssen; Jouke Jan Hottenga
Journal:  Nat Protoc       Date:  2015-07-30       Impact factor: 13.491

3.  Further Confirmation of Germline Glioma Risk Variant rs78378222 in TP53 and Its Implication in Tumor Tissues via Integrative Analysis of TCGA Data.

Authors:  Zhaoming Wang; Preetha Rajaraman; Beatrice S Melin; Charles C Chung; Weijia Zhang; Roberta McKean-Cowdin; Dominique Michaud; Meredith Yeager; Anders Ahlbom; Demetrius Albanes; Ulrika Andersson; Laura E Beane Freeman; Julie E Buring; Mary Ann Butler; Tania Carreón; Maria Feychting; Susan M Gapstur; J Michael Gaziano; Graham G Giles; Goran Hallmans; Roger Henriksson; Judith Hoffman-Bolton; Peter D Inskip; Cari M Kitahara; Loic Le Marchand; Martha S Linet; Shengchao Li; Ulrike Peters; Mark P Purdue; Nathaniel Rothman; Avima M Ruder; Howard D Sesso; Gianluca Severi; Meir Stampfer; Victoria L Stevens; Kala Visvanathan; Sophia S Wang; Emily White; Anne Zeleniuch-Jacquotte; Robert Hoover; Joseph F Fraumeni; Nilanjan Chatterjee; Patricia Hartge; Stephen J Chanock
Journal:  Hum Mutat       Date:  2015-05-18       Impact factor: 4.878

4.  Functional characterization of a chr13q22.1 pancreatic cancer risk locus reveals long-range interaction and allele-specific effects on DIS3 expression.

Authors:  Jason W Hoskins; Abdisamad Ibrahim; Mickey A Emmanuel; Sarah M Manmiller; Yinglun Wu; Maura O'Neill; Jinping Jia; Irene Collins; Mingfeng Zhang; Janelle V Thomas; Lauren M Rost; Sudipto Das; Hemang Parikh; Jefferson M Haake; Gail L Matters; Robert C Kurtz; William R Bamlet; Alison Klein; Rachael Stolzenberg-Solomon; Brian M Wolpin; Ronit Yarden; Zhaoming Wang; Jill Smith; Sara H Olson; Thorkell Andresson; Gloria M Petersen; Laufey T Amundadottir
Journal:  Hum Mol Genet       Date:  2016-11-01       Impact factor: 6.150

5.  Genome-wide association analysis identifies new lung cancer susceptibility loci in never-smoking women in Asia.

Authors:  Qing Lan; Chao A Hsiung; Keitaro Matsuo; Yun-Chul Hong; Adeline Seow; Zhaoming Wang; H Dean Hosgood; Kexin Chen; Jiu-Cun Wang; Nilanjan Chatterjee; Wei Hu; Maria Pik Wong; Wei Zheng; Neil Caporaso; Jae Yong Park; Chien-Jen Chen; Yeul Hong Kim; Young Tae Kim; Maria Teresa Landi; Hongbing Shen; Charles Lawrence; Laurie Burdett; Meredith Yeager; Jeffrey Yuenger; Kevin B Jacobs; I-Shou Chang; Tetsuya Mitsudomi; Hee Nam Kim; Gee-Chen Chang; Bryan A Bassig; Margaret Tucker; Fusheng Wei; Zhihua Yin; Chen Wu; She-Juan An; Biyun Qian; Victor Ho Fun Lee; Daru Lu; Jianjun Liu; Hyo-Sung Jeon; Chin-Fu Hsiao; Jae Sook Sung; Jin Hee Kim; Yu-Tang Gao; Ying-Huang Tsai; Yoo Jin Jung; Huan Guo; Zhibin Hu; Amy Hutchinson; Wen-Chang Wang; Robert Klein; Charles C Chung; In-Jae Oh; Kuan-Yu Chen; Sonja I Berndt; Xingzhou He; Wei Wu; Jiang Chang; Xu-Chao Zhang; Ming-Shyan Huang; Hong Zheng; Junwen Wang; Xueying Zhao; Yuqing Li; Jin Eun Choi; Wu-Chou Su; Kyong Hwa Park; Sook Whan Sung; Xiao-Ou Shu; Yuh-Min Chen; Li Liu; Chang Hyun Kang; Lingmin Hu; Chung-Hsing Chen; William Pao; Young-Chul Kim; Tsung-Ying Yang; Jun Xu; Peng Guan; Wen Tan; Jian Su; Chih-Liang Wang; Haixin Li; Alan Dart Loon Sihoe; Zhenhong Zhao; Ying Chen; Yi Young Choi; Jen-Yu Hung; Jun Suk Kim; Ho-Il Yoon; Qiuyin Cai; Chien-Chung Lin; In Kyu Park; Ping Xu; Jing Dong; Christopher Kim; Qincheng He; Reury-Perng Perng; Takashi Kohno; Sun-Seog Kweon; Chih-Yi Chen; Roel Vermeulen; Junjie Wu; Wei-Yen Lim; Kun-Chieh Chen; Wong-Ho Chow; Bu-Tian Ji; John K C Chan; Minjie Chu; Yao-Jen Li; Jun Yokota; Jihua Li; Hongyan Chen; Yong-Bing Xiang; Chong-Jen Yu; Hideo Kunitoh; Guoping Wu; Li Jin; Yen-Li Lo; Kouya Shiraishi; Ying-Hsiang Chen; Hsien-Chih Lin; Tangchun Wu; Yi-Long Wu; Pan-Chyr Yang; Baosen Zhou; Min-Ho Shin; Joseph F Fraumeni; Dongxin Lin; Stephen J Chanock; Nathaniel Rothman
Journal:  Nat Genet       Date:  2012-11-11       Impact factor: 38.330

6.  MaCH-admix: genotype imputation for admixed populations.

Authors:  Eric Yi Liu; Mingyao Li; Wei Wang; Yun Li
Journal:  Genet Epidemiol       Date:  2012-10-16       Impact factor: 2.135

7.  A multi-locus genetic association test for a dichotomous trait and its secondary phenotype.

Authors:  Han Zhang; Colin O Wu; Yifan Yang; Sonja I Berndt; Stephen J Chanock; Kai Yu
Journal:  Stat Methods Med Res       Date:  2016-08-08       Impact factor: 3.021

8.  Chimeric EWSR1-FLI1 regulates the Ewing sarcoma susceptibility gene EGR2 via a GGAA microsatellite.

Authors:  Thomas G P Grünewald; Virginie Bernard; Pascale Gilardi-Hebenstreit; Virginie Raynal; Didier Surdez; Marie-Ming Aynaud; Olivier Mirabeau; Florencia Cidre-Aranaz; Franck Tirode; Sakina Zaidi; Gaëlle Perot; Anneliene H Jonker; Carlo Lucchesi; Marie-Cécile Le Deley; Odile Oberlin; Perrine Marec-Bérard; Amélie S Véron; Stephanie Reynaud; Eve Lapouble; Valentina Boeva; Thomas Rio Frio; Javier Alonso; Smita Bhatia; Gaëlle Pierron; Geraldine Cancel-Tassin; Olivier Cussenot; David G Cox; Lindsay M Morton; Mitchell J Machiela; Stephen J Chanock; Patrick Charnay; Olivier Delattre
Journal:  Nat Genet       Date:  2015-07-27       Impact factor: 38.330

9.  The new sequencer on the block: comparison of Life Technology's Proton sequencer to an Illumina HiSeq for whole-exome sequencing.

Authors:  Joseph F Boland; Charles C Chung; David Roberson; Jason Mitchell; Xijun Zhang; Kate M Im; Ji He; Stephen J Chanock; Meredith Yeager; Michael Dean
Journal:  Hum Genet       Date:  2013-06-12       Impact factor: 4.132

10.  Genomics in research and health care with Aboriginal and Torres Strait Islander peoples.

Authors:  Rebekah McWhirter; Dianne Nicol; Julian Savulescu
Journal:  Monash Bioeth Rev       Date:  2015 Jun-Sep
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