Literature DB >> 29074945

Analysis commons, a team approach to discovery in a big-data environment for genetic epidemiology.

Jennifer A Brody1, Alanna C Morrison2, Joshua C Bis1, Jeffrey R O'Connell3, Michael R Brown2, Jennifer E Huffman4, Darren C Ames5, Andrew Carroll5, Matthew P Conomos6, Stacey Gabriel7, Richard A Gibbs8, Stephanie M Gogarten6, Namrata Gupta7, Cashell E Jaquish9, Andrew D Johnson4, Joshua P Lewis3, Xiaoming Liu2, Alisa K Manning10,11,12, George J Papanicolaou9, Achilleas N Pitsillides4, Kenneth M Rice6, William Salerno8, Colleen M Sitlani1, Nicholas L Smith1,13,14,15, Susan R Heckbert1,15, Cathy C Laurie6, Braxton D Mitchell3,16, Ramachandran S Vasan4,17,18, Stephen S Rich19, Jerome I Rotter20, James G Wilson21, Eric Boerwinkle2,8, Bruce M Psaty1,13,22, L Adrienne Cupples4,23.   

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Year:  2017        PMID: 29074945      PMCID: PMC5720686          DOI: 10.1038/ng.3968

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


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  11 in total

1.  Rare-variant association testing for sequencing data with the sequence kernel association test.

Authors:  Michael C Wu; Seunggeun Lee; Tianxi Cai; Yun Li; Michael Boehnke; Xihong Lin
Journal:  Am J Hum Genet       Date:  2011-07-07       Impact factor: 11.025

2.  WGSA: an annotation pipeline for human genome sequencing studies.

Authors:  Xiaoming Liu; Simon White; Bo Peng; Andrew D Johnson; Jennifer A Brody; Alexander H Li; Zhuoyi Huang; Andrew Carroll; Peng Wei; Richard Gibbs; Robert J Klein; Eric Boerwinkle
Journal:  J Med Genet       Date:  2015-09-22       Impact factor: 6.318

3.  Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium: Design of prospective meta-analyses of genome-wide association studies from 5 cohorts.

Authors:  Bruce M Psaty; Christopher J O'Donnell; Vilmundur Gudnason; Kathryn L Lunetta; Aaron R Folsom; Jerome I Rotter; André G Uitterlinden; Tamara B Harris; Jacqueline C M Witteman; Eric Boerwinkle
Journal:  Circ Cardiovasc Genet       Date:  2009-02

4.  SeqArray-a storage-efficient high-performance data format for WGS variant calls.

Authors:  Xiuwen Zheng; Stephanie M Gogarten; Michael Lawrence; Adrienne Stilp; Matthew P Conomos; Bruce S Weir; Cathy Laurie; David Levine
Journal:  Bioinformatics       Date:  2017-08-01       Impact factor: 6.937

5.  Rare and low-frequency variants and their association with plasma levels of fibrinogen, FVII, FVIII, and vWF.

Authors:  Jennifer E Huffman; Paul S de Vries; Alanna C Morrison; Maria Sabater-Lleal; Tim Kacprowski; Paul L Auer; Jennifer A Brody; Daniel I Chasman; Ming-Huei Chen; Xiuqing Guo; Li-An Lin; Riccardo E Marioni; Martina Müller-Nurasyid; Lisa R Yanek; Nathan Pankratz; Megan L Grove; Moniek P M de Maat; Mary Cushman; Kerri L Wiggins; Lihong Qi; Bengt Sennblad; Sarah E Harris; Ozren Polasek; Helene Riess; Fernando Rivadeneira; Lynda M Rose; Anuj Goel; Kent D Taylor; Alexander Teumer; André G Uitterlinden; Dhananjay Vaidya; Jie Yao; Weihong Tang; Daniel Levy; Melanie Waldenberger; Diane M Becker; Aaron R Folsom; Franco Giulianini; Andreas Greinacher; Albert Hofman; Chiang-Ching Huang; Charles Kooperberg; Angela Silveira; John M Starr; Konstantin Strauch; Rona J Strawbridge; Alan F Wright; Barbara McKnight; Oscar H Franco; Neil Zakai; Rasika A Mathias; Bruce M Psaty; Paul M Ridker; Geoffrey H Tofler; Uwe Völker; Hugh Watkins; Myriam Fornage; Anders Hamsten; Ian J Deary; Eric Boerwinkle; Wolfgang Koenig; Jerome I Rotter; Caroline Hayward; Abbas Dehghan; Alex P Reiner; Christopher J O'Donnell; Nicholas L Smith
Journal:  Blood       Date:  2015-06-23       Impact factor: 22.113

6.  A general framework for estimating the relative pathogenicity of human genetic variants.

Authors:  Martin Kircher; Daniela M Witten; Preti Jain; Brian J O'Roak; Gregory M Cooper; Jay Shendure
Journal:  Nat Genet       Date:  2014-02-02       Impact factor: 38.330

7.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962

8.  Launching genomics into the cloud: deployment of Mercury, a next generation sequence analysis pipeline.

Authors:  Jeffrey G Reid; Andrew Carroll; Narayanan Veeraraghavan; Mahmoud Dahdouli; Andreas Sundquist; Adam English; Matthew Bainbridge; Simon White; William Salerno; Christian Buhay; Fuli Yu; Donna Muzny; Richard Daly; Geoff Duyk; Richard A Gibbs; Eric Boerwinkle
Journal:  BMC Bioinformatics       Date:  2014-01-29       Impact factor: 3.169

9.  Whole-genome sequence-based analysis of high-density lipoprotein cholesterol.

Authors:  Alanna C Morrison; Arend Voorman; Andrew D Johnson; Xiaoming Liu; Jin Yu; Alexander Li; Donna Muzny; Fuli Yu; Kenneth Rice; Chengsong Zhu; Joshua Bis; Gerardo Heiss; Christopher J O'Donnell; Bruce M Psaty; L Adrienne Cupples; Richard Gibbs; Eric Boerwinkle
Journal:  Nat Genet       Date:  2013-06-16       Impact factor: 38.330

10.  The genetic architecture of type 2 diabetes.

Authors:  Christian Fuchsberger; Jason Flannick; Tanya M Teslovich; Anubha Mahajan; Vineeta Agarwala; Kyle J Gaulton; Clement Ma; Pierre Fontanillas; 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 Müller-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 Stančáková; 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; Denis 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; Dorothée Thuillier; Wei Yen Lim; Jianjun Liu; Yvonne T van der Schouw; Marie Loh; Solomon K Musani; Sobha Puppala; William R Scott; Loïc Yengo; Sian-Tsung Tan; Herman A Taylor; Farook Thameem; Gregory Wilson; Tien Yin Wong; Pål Rasmus Njølstad; Jonathan C Levy; Massimo Mangino; Lori L Bonnycastle; Thomas Schwarzmayr; João 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; Tõnu Esko; Andrew J Farmer; Liisa Hakaste; Dylan Hodgkiss; Jasmina Kravic; Valeriya Lyssenko; Mette Hollensted; Marit E Jørgensen; Torben Jørgensen; Claes Ladenvall; Johanne Marie Justesen; Annemari Käräjämäki; 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 Hrabé de Angelis; Panos Deloukas; Anette P Gjesing; Goo Jun; Peter 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 C N Chan; Kee Seng Chia; Mark J Daly; Shah B Ebrahim; Claudia Langenberg; Paul Elliott; Kathleen A Jablonski; Donna M Lehman; Weiping Jia; Ronald C W Ma; Toni I Pollin; Manjinder Sandhu; Nikhil Tandon; Philippe Froguel; Inês 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 Mägi; 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; E Shyong 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; Noël P Burtt; Karen L Mohlke; Thomas Meitinger; Leif Groop; Goncalo Abecasis; Jose C Florez; Laura J Scott; Andrew P Morris; Hyun Min Kang; Michael Boehnke; David Altshuler; Mark I McCarthy
Journal:  Nature       Date:  2016-07-11       Impact factor: 69.504

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  41 in total

Review 1.  The Continuing Evolution of Precision Health in Type 2 Diabetes: Achievements and Challenges.

Authors:  Yuan Lin; Jennifer Wessel
Journal:  Curr Diab Rep       Date:  2019-02-26       Impact factor: 4.810

2.  Dynamic Scan Procedure for Detecting Rare-Variant Association Regions in Whole-Genome Sequencing Studies.

Authors:  Zilin Li; Xihao Li; Yaowu Liu; Jincheng Shen; Han Chen; Hufeng Zhou; Alanna C Morrison; Eric Boerwinkle; Xihong Lin
Journal:  Am J Hum Genet       Date:  2019-04-12       Impact factor: 11.025

3.  IMIX: a multivariate mixture model approach to association analysis through multi-omics data integration.

Authors:  Ziqiao Wang; Peng Wei
Journal:  Bioinformatics       Date:  2021-04-01       Impact factor: 6.937

4.  A powerful and data-adaptive test for rare-variant-based gene-environment interaction analysis.

Authors:  Tianzhong Yang; Han Chen; Hongwei Tang; Donghui Li; Peng Wei
Journal:  Stat Med       Date:  2018-11-20       Impact factor: 2.373

Review 5.  Impact of Genetic Determinants of HbA1c on Type 2 Diabetes Risk and Diagnosis.

Authors:  Chloé Sarnowski; Marie-France Hivert
Journal:  Curr Diab Rep       Date:  2018-06-21       Impact factor: 4.810

6.  A One-Penny Imputed Genome from Next-Generation Reference Panels.

Authors:  Brian L Browning; Ying Zhou; Sharon R Browning
Journal:  Am J Hum Genet       Date:  2018-08-09       Impact factor: 11.025

7.  Impact of Rare and Common Genetic Variants on Diabetes Diagnosis by Hemoglobin A1c in Multi-Ancestry Cohorts: The Trans-Omics for Precision Medicine Program.

Authors:  Chloé Sarnowski; Aaron Leong; Laura M Raffield; Peitao Wu; Paul S de Vries; Daniel DiCorpo; Xiuqing Guo; Huichun Xu; Yongmei Liu; Xiuwen Zheng; Yao Hu; Jennifer A Brody; Mark O Goodarzi; Bertha A Hidalgo; Heather M Highland; Deepti Jain; Ching-Ti Liu; Rakhi P Naik; Jeffrey R O'Connell; James A Perry; Bianca C Porneala; Elizabeth Selvin; Jennifer Wessel; Bruce M Psaty; Joanne E Curran; Juan M Peralta; John Blangero; Charles Kooperberg; Rasika Mathias; Andrew D Johnson; Alexander P Reiner; Braxton D Mitchell; L Adrienne Cupples; Ramachandran S Vasan; Adolfo Correa; Alanna C Morrison; Eric Boerwinkle; Jerome I Rotter; Stephen S Rich; Alisa K Manning; Josée Dupuis; James B Meigs
Journal:  Am J Hum Genet       Date:  2019-09-26       Impact factor: 11.025

8.  Genotype imputation performance of three reference panels using African ancestry individuals.

Authors:  Candelaria Vergara; Margaret M Parker; Liliana Franco; Michael H Cho; Ana V Valencia-Duarte; Terri H Beaty; Priya Duggal
Journal:  Hum Genet       Date:  2018-04-10       Impact factor: 4.132

Review 9.  Genome sequencing in the clinic: the past, present, and future of genomic medicine.

Authors:  Jeremy W Prokop; Thomas May; Kim Strong; Stephanie M Bilinovich; Caleb Bupp; Surender Rajasekaran; Elizabeth A Worthey; Jozef Lazar
Journal:  Physiol Genomics       Date:  2018-05-04       Impact factor: 3.107

Review 10.  Germline Variation and Somatic Alterations in Ewing Sarcoma.

Authors:  Mitchell J Machiela; Thomas G P Grünewald
Journal:  Methods Mol Biol       Date:  2021
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