Literature DB >> 32948838

Multi-omics study for interpretation of genome-wide association study.

Masato Akiyama1,2.   

Abstract

Genome-wide association studies (GWASs) have identified thousands of genetic loci associated with complex traits, including a wide variety of diseases. Despite the successful identification of associated loci, interpreting GWAS findings remains challenging and requires other biological resources. Omics, including genomics, transcriptomics, proteomics, metabolomics, and epigenomics, are increasingly used in a broad range of research fields. Integrative analyses applying GWAS with these omics data are expected to expand our knowledge of complex traits and provide insight into the pathogenesis of complex diseases and their causative factors. Recently, associations between genetic variants and omics data have been comprehensively evaluated, providing new information on the influence of genetic variants on omics. Furthermore, recent advances in analytic methods, including single-cell technologies, have revealed previously unknown disease mechanisms. To advance our understanding of complex traits, integrative analysis using GWAS with multi-omics data is needed. In this review, I describe successful examples of integrative analyses based on omics and GWAS, discuss the limitations of current multi-omics analyses, and provide a perspective on future integrative studies.

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Year:  2020        PMID: 32948838     DOI: 10.1038/s10038-020-00842-5

Source DB:  PubMed          Journal:  J Hum Genet        ISSN: 1434-5161            Impact factor:   3.172


  57 in total

Review 1.  Genomewide association studies and assessment of the risk of disease.

Authors:  Teri A Manolio
Journal:  N Engl J Med       Date:  2010-07-08       Impact factor: 91.245

2.  Functional SNPs in the lymphotoxin-alpha gene that are associated with susceptibility to myocardial infarction.

Authors:  Kouichi Ozaki; Yozo Ohnishi; Aritoshi Iida; Akihiko Sekine; Ryo Yamada; Tatsuhiko Tsunoda; Hiroshi Sato; Hideyuki Sato; Masatsugu Hori; Yusuke Nakamura; Toshihiro Tanaka
Journal:  Nat Genet       Date:  2002-11-11       Impact factor: 38.330

3.  Genome partitioning of genetic variation for complex traits using common SNPs.

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Journal:  Nat Genet       Date:  2011-05-08       Impact factor: 38.330

Review 4.  Genomic Medicine-Progress, Pitfalls, and Promise.

Authors:  Jay Shendure; Gregory M Findlay; Matthew W Snyder
Journal:  Cell       Date:  2019-03-21       Impact factor: 41.582

Review 5.  Finding the missing heritability of complex diseases.

Authors:  Teri A Manolio; Francis S Collins; Nancy J Cox; David B Goldstein; Lucia A Hindorff; David J Hunter; Mark I McCarthy; Erin M Ramos; Lon R Cardon; Aravinda Chakravarti; Judy H Cho; Alan E Guttmacher; Augustine Kong; Leonid Kruglyak; Elaine Mardis; Charles N Rotimi; Montgomery Slatkin; David Valle; Alice S Whittemore; Michael Boehnke; Andrew G Clark; Evan E Eichler; Greg Gibson; Jonathan L Haines; Trudy F C Mackay; Steven A McCarroll; Peter M Visscher
Journal:  Nature       Date:  2009-10-08       Impact factor: 49.962

Review 6.  Integrative omics for health and disease.

Authors:  Konrad J Karczewski; Michael P Snyder
Journal:  Nat Rev Genet       Date:  2018-02-26       Impact factor: 53.242

7.  A catalog of genetic loci associated with kidney function from analyses of a million individuals.

Authors:  Matthias Wuttke; Yong Li; Man Li; Karsten B Sieber; Mary F Feitosa; Mathias Gorski; Adrienne Tin; Lihua Wang; Audrey Y Chu; Anselm Hoppmann; Holger Kirsten; Ayush Giri; Jin-Fang Chai; Gardar Sveinbjornsson; Bamidele O Tayo; Teresa Nutile; Christian Fuchsberger; Jonathan Marten; Massimiliano Cocca; Sahar Ghasemi; Yizhe Xu; Katrin Horn; Damia Noce; Peter J van der Most; Sanaz Sedaghat; Zhi Yu; Masato Akiyama; Saima Afaq; Tarunveer S Ahluwalia; Peter Almgren; Najaf Amin; Johan Ärnlöv; Stephan J L Bakker; Nisha Bansal; Daniela Baptista; Sven Bergmann; Mary L Biggs; Ginevra Biino; Michael Boehnke; Eric Boerwinkle; Mathilde Boissel; Erwin P Bottinger; Thibaud S Boutin; Hermann Brenner; Marco Brumat; Ralph Burkhardt; Adam S Butterworth; Eric Campana; Archie Campbell; Harry Campbell; Mickaël Canouil; Robert J Carroll; Eulalia Catamo; John C Chambers; Miao-Ling Chee; Miao-Li Chee; Xu Chen; Ching-Yu Cheng; Yurong Cheng; Kaare Christensen; Renata Cifkova; Marina Ciullo; Maria Pina Concas; James P Cook; Josef Coresh; Tanguy Corre; Cinzia Felicita Sala; Daniele Cusi; John Danesh; E Warwick Daw; Martin H de Borst; Alessandro De Grandi; Renée de Mutsert; Aiko P J de Vries; Frauke Degenhardt; Graciela Delgado; Ayse Demirkan; Emanuele Di Angelantonio; Katalin Dittrich; Jasmin Divers; Rajkumar Dorajoo; Kai-Uwe Eckardt; Georg Ehret; Paul Elliott; Karlhans Endlich; Michele K Evans; Janine F Felix; Valencia Hui Xian Foo; Oscar H Franco; Andre Franke; Barry I Freedman; Sandra Freitag-Wolf; Yechiel Friedlander; Philippe Froguel; Ron T Gansevoort; He Gao; Paolo Gasparini; J Michael Gaziano; Vilmantas Giedraitis; Christian Gieger; Giorgia Girotto; Franco Giulianini; Martin Gögele; Scott D Gordon; Daniel F Gudbjartsson; Vilmundur Gudnason; Toomas Haller; Pavel Hamet; Tamara B Harris; Catharina A Hartman; Caroline Hayward; Jacklyn N Hellwege; Chew-Kiat Heng; Andrew A Hicks; Edith Hofer; Wei Huang; Nina Hutri-Kähönen; Shih-Jen Hwang; M Arfan Ikram; Olafur S Indridason; Erik Ingelsson; Marcus Ising; Vincent W V Jaddoe; Johanna Jakobsdottir; Jost B Jonas; Peter K Joshi; Navya Shilpa Josyula; Bettina Jung; Mika Kähönen; Yoichiro Kamatani; Candace M Kammerer; Masahiro Kanai; Mika Kastarinen; Shona M Kerr; Chiea-Chuen Khor; Wieland Kiess; Marcus E Kleber; Wolfgang Koenig; Jaspal S Kooner; Antje Körner; Peter Kovacs; Aldi T Kraja; Alena Krajcoviechova; Holly Kramer; Bernhard K Krämer; Florian Kronenberg; Michiaki Kubo; Brigitte Kühnel; Mikko Kuokkanen; Johanna Kuusisto; Martina La Bianca; Markku Laakso; Leslie A Lange; Carl D Langefeld; Jeannette Jen-Mai Lee; Benjamin Lehne; Terho Lehtimäki; Wolfgang Lieb; Su-Chi Lim; Lars Lind; Cecilia M Lindgren; Jun Liu; Jianjun Liu; Markus Loeffler; Ruth J F Loos; Susanne Lucae; Mary Ann Lukas; Leo-Pekka Lyytikäinen; Reedik Mägi; Patrik K E Magnusson; Anubha Mahajan; Nicholas G Martin; Jade Martins; Winfried März; Deborah Mascalzoni; Koichi Matsuda; Christa Meisinger; Thomas Meitinger; Olle Melander; Andres Metspalu; Evgenia K Mikaelsdottir; Yuri Milaneschi; Kozeta Miliku; Pashupati P Mishra; Karen L Mohlke; Nina Mononen; Grant W Montgomery; Dennis O Mook-Kanamori; Josyf C Mychaleckyj; Girish N Nadkarni; Mike A Nalls; Matthias Nauck; Kjell Nikus; Boting Ning; Ilja M Nolte; Raymond Noordam; Jeffrey O'Connell; Michelle L O'Donoghue; Isleifur Olafsson; Albertine J Oldehinkel; Marju Orho-Melander; Willem H Ouwehand; Sandosh Padmanabhan; Nicholette D Palmer; Runolfur Palsson; Brenda W J H Penninx; Thomas Perls; Markus Perola; Mario Pirastu; Nicola Pirastu; Giorgio Pistis; Anna I Podgornaia; Ozren Polasek; Belen Ponte; David J Porteous; Tanja Poulain; Peter P Pramstaller; Michael H Preuss; Bram P Prins; Michael A Province; Ton J Rabelink; Laura M Raffield; Olli T Raitakari; Dermot F Reilly; Rainer Rettig; Myriam Rheinberger; Kenneth M Rice; Paul M Ridker; Fernando Rivadeneira; Federica Rizzi; David J Roberts; Antonietta Robino; Peter Rossing; Igor Rudan; Rico Rueedi; Daniela Ruggiero; Kathleen A Ryan; Yasaman Saba; Charumathi Sabanayagam; Veikko Salomaa; Erika Salvi; Kai-Uwe Saum; Helena Schmidt; Reinhold Schmidt; Ben Schöttker; Christina-Alexandra Schulz; Nicole Schupf; Christian M Shaffer; Yuan Shi; Albert V Smith; Blair H Smith; Nicole Soranzo; Cassandra N Spracklen; Konstantin Strauch; Heather M Stringham; Michael Stumvoll; Per O Svensson; Silke Szymczak; E-Shyong Tai; Salman M Tajuddin; Nicholas Y Q Tan; Kent D Taylor; Andrej Teren; Yih-Chung Tham; Joachim Thiery; Chris H L Thio; Hauke Thomsen; Gudmar Thorleifsson; Daniela Toniolo; Anke Tönjes; Johanne Tremblay; Ioanna Tzoulaki; André G Uitterlinden; Simona Vaccargiu; Rob M van Dam; Pim van der Harst; Cornelia M van Duijn; Digna R Velez Edward; Niek Verweij; Suzanne Vogelezang; Uwe Völker; Peter Vollenweider; Gerard Waeber; Melanie Waldenberger; Lars Wallentin; Ya Xing Wang; Chaolong Wang; Dawn M Waterworth; Wen Bin Wei; Harvey White; John B Whitfield; Sarah H Wild; James F Wilson; Mary K Wojczynski; Charlene Wong; Tien-Yin Wong; Liang Xu; Qiong Yang; Masayuki Yasuda; Laura M Yerges-Armstrong; Weihua Zhang; Alan B Zonderman; Jerome I Rotter; Murielle Bochud; Bruce M Psaty; Veronique Vitart; James G Wilson; Abbas Dehghan; Afshin Parsa; Daniel I Chasman; Kevin Ho; Andrew P Morris; Olivier Devuyst; Shreeram Akilesh; Sarah A Pendergrass; Xueling Sim; Carsten A Böger; Yukinori Okada; Todd L Edwards; Harold Snieder; Kari Stefansson; Adriana M Hung; Iris M Heid; Markus Scholz; Alexander Teumer; Anna Köttgen; Cristian Pattaro
Journal:  Nat Genet       Date:  2019-05-31       Impact factor: 38.330

8.  Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals.

Authors:  James J Lee; Robbee Wedow; Aysu Okbay; Edward Kong; Omeed Maghzian; Meghan Zacher; Tuan Anh Nguyen-Viet; Peter Bowers; Julia Sidorenko; Richard Karlsson Linnér; Mark Alan Fontana; Tushar Kundu; Chanwook Lee; Hui Li; Ruoxi Li; Rebecca Royer; Pascal N Timshel; Raymond K Walters; Emily A Willoughby; Loïc Yengo; Maris Alver; Yanchun Bao; David W Clark; Felix R Day; Nicholas A Furlotte; Peter K Joshi; Kathryn E Kemper; Aaron Kleinman; Claudia Langenberg; Reedik Mägi; Joey W Trampush; Shefali Setia Verma; Yang Wu; Max Lam; Jing Hua Zhao; Zhili Zheng; Jason D Boardman; Harry Campbell; Jeremy Freese; Kathleen Mullan Harris; Caroline Hayward; Pamela Herd; Meena Kumari; Todd Lencz; Jian'an Luan; Anil K Malhotra; Andres Metspalu; Lili Milani; Ken K Ong; John R B Perry; David J Porteous; Marylyn D Ritchie; Melissa C Smart; Blair H Smith; Joyce Y Tung; Nicholas J Wareham; James F Wilson; Jonathan P Beauchamp; Dalton C Conley; Tõnu Esko; Steven F Lehrer; Patrik K E Magnusson; Sven Oskarsson; Tune H Pers; Matthew R Robinson; Kevin Thom; Chelsea Watson; Christopher F Chabris; Michelle N Meyer; David I Laibson; Jian Yang; Magnus Johannesson; Philipp D Koellinger; Patrick Turley; Peter M Visscher; Daniel J Benjamin; David Cesarini
Journal:  Nat Genet       Date:  2018-07-23       Impact factor: 38.330

9.  Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences.

Authors:  Richard Karlsson Linnér; Pietro Biroli; Edward Kong; S Fleur W Meddens; Robbee Wedow; Mark Alan Fontana; Maël Lebreton; Stephen P Tino; Abdel Abdellaoui; Anke R Hammerschlag; Michel G Nivard; Aysu Okbay; Cornelius A Rietveld; Pascal N Timshel; Maciej Trzaskowski; Ronald de Vlaming; Christian L Zünd; Yanchun Bao; Laura Buzdugan; Ann H Caplin; Chia-Yen Chen; Peter Eibich; Pierre Fontanillas; Juan R Gonzalez; Peter K Joshi; Ville Karhunen; Aaron Kleinman; Remy Z Levin; Christina M Lill; Gerardus A Meddens; Gerard Muntané; Sandra Sanchez-Roige; Frank J van Rooij; Erdogan Taskesen; Yang Wu; Futao Zhang; Adam Auton; Jason D Boardman; David W Clark; Andrew Conlin; Conor C Dolan; Urs Fischbacher; Patrick J F Groenen; Kathleen Mullan Harris; Gregor Hasler; Albert Hofman; Mohammad A Ikram; Sonia Jain; Robert Karlsson; Ronald C Kessler; Maarten Kooyman; James MacKillop; Minna Männikkö; Carlos Morcillo-Suarez; Matthew B McQueen; Klaus M Schmidt; Melissa C Smart; Matthias Sutter; A Roy Thurik; André G Uitterlinden; Jon White; Harriet de Wit; Jian Yang; Lars Bertram; Dorret I Boomsma; Tõnu Esko; Ernst Fehr; David A Hinds; Magnus Johannesson; Meena Kumari; David Laibson; Patrik K E Magnusson; Michelle N Meyer; Arcadi Navarro; Abraham A Palmer; Tune H Pers; Danielle Posthuma; Daniel Schunk; Murray B Stein; Rauli Svento; Henning Tiemeier; Paul R H J Timmers; Patrick Turley; Robert J Ursano; Gert G Wagner; James F Wilson; Jacob Gratten; James J Lee; David Cesarini; Daniel J Benjamin; Philipp D Koellinger; Jonathan P Beauchamp
Journal:  Nat Genet       Date:  2019-01-14       Impact factor: 38.330

10.  Genetic variance estimation with imputed variants finds negligible missing heritability for human height and body mass index.

Authors:  Jian Yang; Andrew Bakshi; Zhihong Zhu; Gibran Hemani; Anna A E Vinkhuyzen; Sang Hong Lee; Matthew R Robinson; John R B Perry; Ilja M Nolte; Jana V van Vliet-Ostaptchouk; Harold Snieder; Tonu Esko; Lili Milani; Reedik Mägi; Andres Metspalu; Anders Hamsten; Patrik K E Magnusson; Nancy L Pedersen; Erik Ingelsson; Nicole Soranzo; Matthew C Keller; Naomi R Wray; Michael E Goddard; Peter M Visscher
Journal:  Nat Genet       Date:  2015-08-31       Impact factor: 38.330

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Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 11.622

2.  Systematic Review of Multi-Omics Approaches to Investigate Toxicological Effects in Macrophages.

Authors:  Isabel Karkossa; Stefanie Raps; Martin von Bergen; Kristin Schubert
Journal:  Int J Mol Sci       Date:  2020-12-09       Impact factor: 5.923

3.  Multi-omics analysis dissects the genetic architecture of seed coat content in Brassica napus.

Authors:  Yuting Zhang; Hui Zhang; Hu Zhao; Yefan Xia; Xiangbo Zheng; Ruyi Fan; Zengdong Tan; Chenhua Duan; Yansong Fu; Long Li; Jiang Ye; Shan Tang; Honghong Hu; Weibo Xie; Xuan Yao; Liang Guo
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4.  Genetic Architecture of Untargeted Lipidomics in Cardiometabolic-Disease Patients Combines Strong Polygenic Control and Pleiotropy.

Authors:  Francois Brial; Lyamine Hedjazi; Kazuhiro Sonomura; Cynthia Al Hageh; Pierre Zalloua; Fumihiko Matsuda; Dominique Gauguier
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Review 5.  Genetics of autosomal mosaic chromosomal alteration (mCA).

Authors:  Xiaoxi Liu; Yoichiro Kamatani; Chikashi Terao
Journal:  J Hum Genet       Date:  2021-07-28       Impact factor: 3.172

  5 in total

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