Data Descriptor: Sequence data and association statistics from 12,940 type 2 diabetes cases and controls

Jason Flannick; Christian Fuchsberger; Anubha Mahajan; Tanya M. Teslovich; Vineeta Agarwala; Kyle J. Gaulton; Lizz Caulkins; Ryan Koesterer; Clement Ma; Loukas Moutsianas; Davis J. McCarthy; Manuel A. Rivas; John R. B. Perry; Xueling Sim; Thomas W. Blackwell; Neil R. Robertson; N. William Rayner; Pablo Cingolani; Adam E. Locke; Juan Fernandez Tajes; Heather M. Highland; Josee Dupuis; Peter S. Chines; Cecilia M. Lindgren; Christopher Hartl; Anne U. Jackson; Han Chen; Jeroen R. Huyghe; Martijn Van De Bunt; Richard D. Pearson; Ashish Kumar; Martina Muller-Nurasyid; Niels Grarup; Heather M. Stringham; Eric R. Gamazon; Jaehoon Lee; Yuhui Chen; Robert A. Scott; Jennifer E. Below; Peng Chen; Jinyan Huang; Min Jin Go; Michael L. Stitzel; Dorota Pasko; Stephen C. J. Parker; Tibor V. Varga; Todd Green; Nicola L. Beer; Aaron G. Day-Williams; Teresa Ferreira; Tasha Fingerlin; Momoko Horikoshi; Cheng Hu; Iksoo Huh; Mohammad Kamran Ikram; Bong-Jo Kim; Yongkang Kim; Young Jin Kim; Min-Seok Kwon; Juyoung Lee; Selyeong Lee; Keng-Han Lin; Taylor J. Maxwell; Yoshihiko Nagai; Xu Wang; Ryan P. Welch; Joon Yoon; Weihua Zhang; Nir Barzilai; Benjamin F. Voight; Bok-Ghee Han; Christopher P. Jenkinson; Teemu Kuulasmaa; Johanna Kuusisto; Alisa Manning; Maggie C. Y. Ng; Nicholette D. Palmer; Beverley Balkau; Alena Stancakova; Hanna E. Abboud; Heiner Boeing; Vilmantas Giedraitis; Dorairaj Prabhakaran; Omri Gottesman; James Scott; Jason Carey; Phoenix Kwan; George Grant; Joshua D. Smith; Benjamin M. Neale; Shaun Purcell; Adam S. Butterworth; Joanna M. M. Howson; Heung Man Lee; Yingchang Lu; Soo-Heon Kwak; Wei Zhao; John Danesh; Vincent K. L. Lam; Kyong Soo Park; Danish Saleheen; Wing Yee So; Claudia H. T. Tam; Uzma Afzal; David Aguilar; Rector Arya; Tin Aung; Edmund Chan; Carmen Navarro; Ching-Yu Cheng; Domenico Palli; Adolfo Correa; Joanne E. Curran; Dennis Rybin; Vidya S. Farook; Sharon P. Fowler; Barry I. Freedman; Michael Griswold; Daniel Esten Hale; Pamela J. Hicks; Chiea-Chuen Khor; Satish Kumar; Benjamin Lehne; Dorothee Thuillier; Wei Yen Lim; Jianjun Liu; Marie Loh; Solomon K. Musani; Sobha Puppala; William R. Scott; Loic Yengo; Sian-Tsung Tan; Herman A. Taylor; Farook Thameem; Gregory Wilson; Tien Yin Wong; Pal Rasmus Njolstad; Jonathan C. Levy; Massimo Mangino; Lori L. Bonnycastle; Thomas Schwarzmayr; Joao Fadista; Gabriela L. Surdulescu; Christian Herder; Christopher J. Groves; Thomas Wieland; Jette Bork-Jensen; Ivan Brandslund; Cramer Christensen; Heikki A. Koistinen; Alex S. F. Doney; Leena Kinnunen; Tonu Esko; Andrew J. Farmer; Liisa Hakaste; Dylan Hodgkiss; Jasmina Kravic; Valeriya Lyssenko; Mette Hollensted; Marit E. Jorgensen; Torben Jorgensen; Claes Ladenvall; Johanne Marie Justesen; Annemari Karajamaki; Jennifer Kriebel; Wolfgang Rathmann; Lars Lannfelt; Torsten Lauritzen; Narisu Narisu; Allan Linneberg; Olle Melander; Lili Milani; Matt Neville; Marju Orho-Melander; Lu Qi; Qibin Qi; Michael Roden; Olov Rolandsson; Amy Swift; Anders H. Rosengren; Kathleen Stirrups; Andrew R. Wood; Evelin Mihailov; Christine Blancher; Mauricio O. Carneiro; Jared Maguire; Ryan Poplin; Khalid Shakir; Timothy Fennell; Mark DePristo; Martin Hrabe De Angelis; Panos Deloukas; Anette P. Gjesing; Goo Jun; Peter M. Nilsson; Jacquelyn Murphy; Robert Onofrio; Barbara Thorand; Torben Hansen; Christa Meisinger; Frank B. Hu; Bo Isomaa; Fredrik Karpe; Liming Liang; Annette Peters; Cornelia Huth; Stephen P. O'Rahilly; Colin N. A. Palmer; Oluf Pedersen; Rainer Rauramaa; Jaakko Tuomilehto; Veikko Salomaa; Richard M. Watanabe; Ann-Christine Syvänen; Richard N. Bergman; Dwaipayan Bharadwaj; Erwin P. Bottinger; Yoon Shin Cho; Giriraj R. Chandak; Juliana Cn Chan; Kee Seng Chia; Mark J. Daly; Shah B. Ebrahim; Claudia Langenberg; Paul Elliott; Kathleen A. Jablonski; Donna M. Lehman; Weiping Jia; Ronald Cw Ma; Toni I. Pollin; Manjinder Sandhu; Nikhil Tandon; Philippe Froguel; Ines Barroso; Yik Ying Teo; Eleftheria Zeggini; Ruth J. F. Loos; Kerrin S. Small; Janina S. Ried; Ralph A. DeFronzo; Harald Grallert; Benjamin Glaser; Andres Metspalu; Nicholas J. Wareham; Mark Walker; Eric Banks; Christian Gieger; Erik Ingelsson; Hae Kyung Im; Thomas Illig; Paul W. Franks; Gemma Buck; Joseph Trakalo; David Buck; Inga Prokopenko; Reedik Magi; Lars Lind; Yossi Farjoun; Katharine R. Owen; Anna L. Gloyn; Konstantin Strauch; Tiinamaija Tuomi; Jaspal Singh Kooner; Jong-Young Lee; Taesung Park; Peter Donnelly; Andrew D. Morris; Andrew T. Hattersley; Donald W. Bowden; Francis S. Collins; Gil Atzmon; John C. Chambers; Timothy D. Spector; Markku Laakso; Tim M. Strom; Graeme I. Bell; John Blangero; Ravindranath Duggirala; EShyong Tai; Gilean McVean; Craig L. Hanis; James G. Wilson; Mark Seielstad; Timothy M. Frayling; James B. Meigs; Nancy J. Cox; Rob Sladek; Eric S. Lander; Stacey Gabriel; Karen L. Mohlke; Thomas Meitinger; Leif Groop; Goncalo Abecasis; Laura J. Scott; Andrew P. Morris; Hyun Min Kang; David Altshuler; Noel P. Burtt; Jose C. Florez; Michael Boehnke; Mark I. McCarthy

doi:10.1038/sdata.2017.179

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Data Descriptor: Sequence data and association statistics from 12,940 type 2 diabetes cases and controls

Journal article

Open access

Peer reviewed

Data Descriptor: Sequence data and association statistics from 12,940 type 2 diabetes cases and controls

Jason Flannick, Christian Fuchsberger, Anubha Mahajan, Tanya M. Teslovich, Vineeta Agarwala, Kyle J. Gaulton, Lizz Caulkins, Ryan Koesterer, Clement Ma, Loukas Moutsianas, …

Scientific data, Vol.4, pp.1-20

19/12/2017

DOI: https://doi.org/10.1038/sdata.2017.179

PMID: 29257133

Abstract

Basic Medicine

Clinical Medicine

Endocrinology and Diabetes

Endokrinologi och diabetes

Klinisk medicin

Medical and Health Sciences

Medical Genetics

Medicin och hälsovetenskap

Medicinsk genetik

Medicinska och farmaceutiska grundvetenskaper

To investigate the genetic basis of type 2 diabetes (T2D) to high resolution, the GoT2D and T2D-GENES consortia catalogued variation from whole-genome sequencing of 2,657 European individuals and exome sequencing of 12,940 individuals of multiple ancestries. Over 27M SNPs, indels, and structural variants were identified, including 99% of low-frequency (minor allele frequency [MAF] 0.1-5%) non-coding variants in the whole-genome sequenced individuals and 99.7% of low-frequency coding variants in the whole-exome sequenced individuals. Each variant was tested for association with T2D in the sequenced individuals, and, to increase power, most were tested in larger numbers of individuals (> 80% of low-frequency coding variants in similar to ~82 K Europeans via the exome chip, and similar to ~90% of low-frequency non-coding variants in similar to ~44 K Europeans via genotype imputation). The variants, genotypes, and association statistics from these analyses provide the largest reference to date of human genetic information relevant to T2D, for use in activities such as T2D-focused genotype imputation, functional characterization of variants or genes, and other novel analyses to detect associations between sequence variation and T2D.

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Title: Data Descriptor
Creators - without role: Jason Flannick - Broad Institute
Christian Fuchsberger - University of Michigan–Ann Arbor
Anubha Mahajan - University of Oxford
Tanya M. Teslovich - University of Michigan–Ann Arbor
Vineeta Agarwala - Broad Institute
Kyle J. Gaulton - Wellcome Centre for Human Genetics
Lizz Caulkins - Broad Institute
Ryan Koesterer - Broad Institute
Clement Ma - University of Michigan–Ann Arbor
Loukas Moutsianas - Wellcome Centre for Human Genetics
Davis J. McCarthy - Wellcome Centre for Human Genetics
Manuel A. Rivas - Wellcome Centre for Human Genetics
John R. B. Perry - University of Exeter
Xueling Sim - Statistical Research
Thomas W. Blackwell - University of Michigan–Ann Arbor
Neil R. Robertson - Wellcome Centre for Human Genetics
N. William Rayner - University of Oxford
Pablo Cingolani - McGill University
Adam E. Locke - University of Michigan–Ann Arbor
Juan Fernandez Tajes - Wellcome Centre for Human Genetics
Heather M. Highland - The University of Texas Health Science Center at Houston
Josee Dupuis - National Heart Lung and Blood Institute
Peter S. Chines - National Institutes of Health
Cecilia M. Lindgren - University of Oxford
Christopher Hartl - Broad Institute
Anne U. Jackson - University of Michigan–Ann Arbor
Han Chen
Jeroen R. Huyghe - Statistical Research
Martijn Van De Bunt
Richard D. Pearson - University of Oxford
Ashish Kumar
Martina Muller-Nurasyid
Niels Grarup - Novo Nordisk Foundation
Heather M. Stringham - University of Michigan–Ann Arbor
Eric R. Gamazon - University of Chicago
Jaehoon Lee - Seoul Natl Univ, Dept Stat, Seoul, South Korea
Yuhui Chen - University of Oxford
Robert A. Scott - MRC Epidemiology Unit
Jennifer E. Below - The University of Texas Health Science Center at Houston
Peng Chen - National University Health System
Jinyan Huang - Harvard University
Min Jin Go - Korea National Institute of Health
Michael L. Stitzel - Jackson Laboratory
Dorota Pasko - University of Exeter
Stephen C. J. Parker - University of Michigan–Ann Arbor
Tibor V. Varga - Lund University
Todd Green - Broad Institute
Nicola L. Beer - Oxford Centre for Diabetes, Endocrinology and Metabolism
Aaron G. Day-Williams - Wellcome Sanger Institute
Teresa Ferreira - University of Oxford
Tasha Fingerlin - Colorado School of Public Health
Momoko Horikoshi - University of Oxford
Cheng Hu - Shanghai Jiao Tong University
Iksoo Huh - Seoul National University
Mohammad Kamran Ikram
Bong-Jo Kim - Korea National Institute of Health
Yongkang Kim - Seoul Natl Univ, Dept Stat, Seoul, South Korea
Young Jin Kim - Korea Natl Inst Hlth, Ctr Genome Sci, Chungcheongbukdo, South Korea
Min-Seok Kwon - Seoul National University
Juyoung Lee - Korea National Institute of Health
Selyeong Lee - Seoul National University
Keng-Han Lin - Statistical Research
Taylor J. Maxwell - The University of Texas Health Science Center at Houston
Yoshihiko Nagai - McGill University and Génome Québec Innovation Centre
Xu Wang - National University Health System
Ryan P. Welch - Statistical Research
Joon Yoon - Seoul National University
Weihua Zhang - Imperial College London
Nir Barzilai - Albert Einstein College of Medicine
Benjamin F. Voight - Translational Therapeutics
Bok-Ghee Han - Korea National Institute of Health
Christopher P. Jenkinson - South Texas Veterans Health Care System
Teemu Kuulasmaa - University of Eastern Finland
Johanna Kuusisto - Kuopio University Hospital
Alisa Manning - Broad Institute
Maggie C. Y. Ng - Wake Forest University
Nicholette D. Palmer - Wake Forest University
Beverley Balkau - Inserm
Alena Stancakova - University of Eastern Finland
Hanna E. Abboud - The University of Texas Health Science Center at San Antonio
Heiner Boeing - German Institute of Human Nutrition
Vilmantas Giedraitis - Uppsala University
Dorairaj Prabhakaran - Centre for Chronic Disease Control
Omri Gottesman - Icahn School of Medicine at Mount Sinai
James Scott - Imperial College London
Jason Carey - Broad Institute
Phoenix Kwan - University of Michigan–Ann Arbor
George Grant - Broad Institute
Joshua D. Smith - University of Washington
Benjamin M. Neale - Broad Institute
Shaun Purcell - Broad Institute
Adam S. Butterworth - University of Cambridge
Joanna M. M. Howson - University of Cambridge
Heung Man Lee - Chinese University of Hong Kong
Yingchang Lu - Icahn School of Medicine at Mount Sinai
Soo-Heon Kwak - Seoul National University
Wei Zhao - University of Pennsylvania
John Danesh - Wellcome Sanger Institute
Vincent K. L. Lam - Chinese University of Hong Kong
Kyong Soo Park - Seoul National University
Danish Saleheen
Wing Yee So - Chinese University of Hong Kong
Claudia H. T. Tam - Chinese University of Hong Kong
Uzma Afzal - Biostat
David Aguilar - College Station Medical Center
Rector Arya - Univ Texas Hlth Sci Ctr, Dept Pediat, San Antonio, TX USA
Tin Aung
Edmund Chan - Supreme Council Of Health
Carmen Navarro
Ching-Yu Cheng
Domenico Palli - Florence
Adolfo Correa - University of Mississippi
Joanne E. Curran - The University of Texas Rio Grande Valley
Dennis Rybin - Boston University
Vidya S. Farook - Texas Biomedical Research Institute
Sharon P. Fowler - College Station Medical Center
Barry I. Freedman - Supreme Council Of Health
Michael Griswold - University of Mississippi
Daniel Esten Hale - Univ Texas Hlth Sci Ctr, Dept Pediat, San Antonio, TX USA
Pamela J. Hicks
Chiea-Chuen Khor
Satish Kumar - The University of Texas Rio Grande Valley
Benjamin Lehne - Biostat
Dorothee Thuillier - University of Lille
Wei Yen Lim - Supreme Council Of Health
Jianjun Liu
Marie Loh
Solomon K. Musani - University of Mississippi
Sobha Puppala - Texas Biomedical Research Institute
William R. Scott - Biostat
Loic Yengo - University of Lille
Sian-Tsung Tan
Herman A. Taylor - University of Mississippi
Farook Thameem - College Station Medical Center
Gregory Wilson - Jackson State University
Tien Yin Wong
Pal Rasmus Njolstad
Jonathan C. Levy - University of Oxford
Massimo Mangino
Lori L. Bonnycastle - College Station Medical Center
Thomas Schwarzmayr - Helmholtz Zentrum München
Joao Fadista - Lund University
Gabriela L. Surdulescu - Kings Coll London, Dept Twin Res & Genet Epidemiol, London, England
Christian Herder
Christopher J. Groves - University of Oxford
Thomas Wieland - Helmholtz Zentrum München
Jette Bork-Jensen - University of Copenhagen
Ivan Brandslund
Cramer Christensen - College Station Medical Center
Heikki A. Koistinen
Alex S. F. Doney - Supreme Council Of Health
Leena Kinnunen - Natl Inst Hlth & Welf, Dept Hlth, Helsinki, Finland
Tonu Esko
Andrew J. Farmer - University of Oxford
Liisa Hakaste
Dylan Hodgkiss - Kings Coll London, Dept Twin Res & Genet Epidemiol, London, England
Jasmina Kravic - Lund University
Valeriya Lyssenko
Mette Hollensted - University of Copenhagen
Marit E. Jorgensen - Steno Diabet Ctr, Gentofte, Denmark
Torben Jorgensen
Claes Ladenvall - Lund University
Johanne Marie Justesen - University of Copenhagen
Annemari Karajamaki
Jennifer Kriebel
Wolfgang Rathmann
Lars Lannfelt - Geriatrik
Torsten Lauritzen - Aarhus University
Narisu Narisu - College Station Medical Center
Allan Linneberg
Olle Melander - Lund University
Lili Milani - University of Tartu
Matt Neville
Marju Orho-Melander - Lund University
Lu Qi
Qibin Qi
Michael Roden
Olov Rolandsson - Umeå University
Amy Swift - College Station Medical Center
Anders H. Rosengren - Lund University
Kathleen Stirrups - Wellcome Sanger Institute
Andrew R. Wood - University of Exeter
Evelin Mihailov - University of Tartu
Christine Blancher - University of Oxford
Mauricio O. Carneiro - Broad Institute
Jared Maguire - Broad Institute
Ryan Poplin - Broad Institute
Khalid Shakir - Broad Institute
Timothy Fennell - Broad Institute
Mark DePristo - Broad Institute
Martin Hrabe De Angelis - Helmholtz Zentrum München
Panos Deloukas
Anette P. Gjesing - University of Copenhagen
Goo Jun
Peter M. Nilsson
Jacquelyn Murphy - Broad Institute
Robert Onofrio - Broad Institute
Barbara Thorand
Torben Hansen
Christa Meisinger
Frank B. Hu
Bo Isomaa
Fredrik Karpe
Liming Liang
Annette Peters
Cornelia Huth
Stephen P. O'Rahilly - University of Cambridge
Colin N. A. Palmer
Oluf Pedersen - University of Copenhagen
Rainer Rauramaa - College Station Medical Center
Jaakko Tuomilehto
Veikko Salomaa - Natl Inst Hlth & Welf, Helsinki, Finland
Richard M. Watanabe
Ann-Christine Syvänen - Science for Life Laboratory
Richard N. Bergman - Cedars Sinai Diabet & Obes Res Inst, Los Angeles, CA USA
Dwaipayan Bharadwaj - Institute of Genomics and Integrative Biology
Erwin P. Bottinger - Supreme Council Of Health
Yoon Shin Cho - Hallym University
Giriraj R. Chandak - CSIR, Ctr Cellular & Mol Biol, Hyderabad, Andhra Pradesh, India
Juliana Cn Chan
Kee Seng Chia - Supreme Council Of Health
Mark J. Daly - College Station Medical Center
Shah B. Ebrahim - Ctr Chron Dis Control, New Delhi, India
Claudia Langenberg - University of Cambridge
Paul Elliott
Kathleen A. Jablonski - George Washington University
Donna M. Lehman - College Station Medical Center
Weiping Jia - Shanghai Jiao Tong University
Ronald Cw Ma
Toni I. Pollin
Manjinder Sandhu
Nikhil Tandon - College Station Medical Center
Philippe Froguel
Ines Barroso
Yik Ying Teo
Eleftheria Zeggini - Wellcome Sanger Institute
Ruth J. F. Loos - Supreme Council Of Health
Kerrin S. Small - Kings Coll London, Dept Twin Res & Genet Epidemiol, London, England
Janina S. Ried - Helmholtz Zentrum München
Ralph A. DeFronzo - College Station Medical Center
Harald Grallert
Benjamin Glaser - Hadassah
Andres Metspalu - University of Tartu
Nicholas J. Wareham - University of Chicago
Mark Walker - University of Newcastle Australia
Eric Banks - Broad Institute
Christian Gieger
Erik Ingelsson - University of Oxford
Hae Kyung Im - University of Chicago
Thomas Illig
Paul W. Franks
Gemma Buck - University of Oxford
Joseph Trakalo - University of Oxford
David Buck - University of Oxford
Inga Prokopenko
Reedik Magi - University of Tartu
Lars Lind - Kardiovaskulär epidemiologi
Yossi Farjoun - Broad Institute
Katharine R. Owen
Anna L. Gloyn
Konstantin Strauch
Tiinamaija Tuomi
Jaspal Singh Kooner
Jong-Young Lee - Korea Natl Inst Hlth, Ctr Genome Sci, Chungcheongbukdo, South Korea
Taesung Park
Peter Donnelly
Andrew D. Morris
Andrew T. Hattersley - University of Exeter
Donald W. Bowden
Francis S. Collins - College Station Medical Center
Gil Atzmon
John C. Chambers
Timothy D. Spector - Kings Coll London, Dept Twin Res & Genet Epidemiol, London, England
Markku Laakso
Tim M. Strom
Graeme I. Bell
John Blangero - The University of Texas Rio Grande Valley
Ravindranath Duggirala - Texas Biomedical Research Institute
EShyong Tai
Gilean McVean
Craig L. Hanis - Supreme Council Of Health
James G. Wilson - University of Mississippi
Mark Seielstad
Timothy M. Frayling - University of Exeter
James B. Meigs
Nancy J. Cox - University of Chicago
Rob Sladek
Eric S. Lander - Broad Institute
Stacey Gabriel - Broad Institute
Karen L. Mohlke - Univ N Carolina, Dept Genet, Chapel Hill, NC USA
Thomas Meitinger
Leif Groop
Goncalo Abecasis - Biostat
Laura J. Scott - Biostat
Andrew P. Morris
Hyun Min Kang - Massachusetts Gen Hosp, Dept Mol Biol, Boston, MA USA
David Altshuler
Noel P. Burtt - Broad Institute
Jose C. Florez
Michael Boehnke - Biostat
Mark I. McCarthy
Publication Details: Scientific data, Vol.4, pp.1-20
Identifiers: 9935515708331
Academic Unit: King Abdulaziz University
Language: English
Resource Type: Journal article