Literature DB >> 29477192

Research Techniques Made Simple: Using Genome-Wide Association Studies to Understand Complex Cutaneous Disorders.

Lam C Tsoi1, Matthew T Patrick2, James T Elder3.   

Abstract

Complex cutaneous disorders result from the combined effect of many different genes and environmental factors, with individual genetic variants often having only a modest effect on disease risk. The ability to examine large numbers of samples is required for correlating genetic variants with diseases/traits. Technological advances in high-throughput genotyping, along with mapping of the human genome and its associated inter-individual variation, have allowed genetic variants to be analyzed at high density in large case-control cohorts for many diseases, including several major skin diseases. These genome-wide association studies focus on showing differences in the frequencies of variants between case and control groups, rather than co-transmission of a variant and disease through a family, as is done in linkage studies. In this review, we provide overall guidance for genome-wide association study analysis and interpreting the results. Additionally, we discuss challenges and future directions for genome-wide association studies, focusing on translation of findings to provide biological and clinical implications for dermatology.
Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved.

Entities:  

Mesh:

Year:  2018        PMID: 29477192      PMCID: PMC5903459          DOI: 10.1016/j.jid.2018.01.004

Source DB:  PubMed          Journal:  J Invest Dermatol        ISSN: 0022-202X            Impact factor:   8.551


  57 in total

1.  Genomic control for association studies.

Authors:  B Devlin; K Roeder
Journal:  Biometrics       Date:  1999-12       Impact factor: 2.571

2.  Improved ancestry estimation for both genotyping and sequencing data using projection procrustes analysis and genotype imputation.

Authors:  Chaolong Wang; Xiaowei Zhan; Liming Liang; Gonçalo R Abecasis; Xihong Lin
Journal:  Am J Hum Genet       Date:  2015-05-28       Impact factor: 11.025

Review 3.  Pharmacogenomics knowledge for personalized medicine.

Authors:  M Whirl-Carrillo; E M McDonagh; J M Hebert; L Gong; K Sangkuhl; C F Thorn; R B Altman; T E Klein
Journal:  Clin Pharmacol Ther       Date:  2012-10       Impact factor: 6.875

4.  FTO Obesity Variant Circuitry and Adipocyte Browning in Humans.

Authors:  Melina Claussnitzer; Simon N Dankel; Kyoung-Han Kim; Gerald Quon; Wouter Meuleman; Christine Haugen; Viktoria Glunk; Isabel S Sousa; Jacqueline L Beaudry; Vijitha Puviindran; Nezar A Abdennur; Jannel Liu; Per-Arne Svensson; Yi-Hsiang Hsu; Daniel J Drucker; Gunnar Mellgren; Chi-Chung Hui; Hans Hauner; Manolis Kellis
Journal:  N Engl J Med       Date:  2015-08-19       Impact factor: 91.245

5.  Genome-wide association study identifies eight new susceptibility loci for atopic dermatitis in the Japanese population.

Authors:  Tomomitsu Hirota; Atsushi Takahashi; Michiaki Kubo; Tatsuhiko Tsunoda; Kaori Tomita; Masafumi Sakashita; Takechiyo Yamada; Shigeharu Fujieda; Shota Tanaka; Satoru Doi; Akihiko Miyatake; Tadao Enomoto; Chiharu Nishiyama; Nobuhiro Nakano; Keiko Maeda; Ko Okumura; Hideoki Ogawa; Shigaku Ikeda; Emiko Noguchi; Tohru Sakamoto; Nobuyuki Hizawa; Koji Ebe; Hidehisa Saeki; Takashi Sasaki; Tamotsu Ebihara; Masayuki Amagai; Satoshi Takeuchi; Masutaka Furue; Yusuke Nakamura; Mayumi Tamari
Journal:  Nat Genet       Date:  2012-10-07       Impact factor: 38.330

6.  Identification of 15 new psoriasis susceptibility loci highlights the role of innate immunity.

Authors:  Lam C Tsoi; Sarah L Spain; Jo Knight; Eva Ellinghaus; Philip E Stuart; Francesca Capon; Jun Ding; Yanming Li; Trilokraj Tejasvi; Johann E Gudjonsson; Hyun M Kang; Michael H Allen; Ross McManus; Giuseppe Novelli; Lena Samuelsson; Joost Schalkwijk; Mona Ståhle; A David Burden; Catherine H Smith; Michael J Cork; Xavier Estivill; Anne M Bowcock; Gerald G Krueger; Wolfgang Weger; Jane Worthington; Rachid Tazi-Ahnini; Frank O Nestle; Adrian Hayday; Per Hoffmann; Juliane Winkelmann; Cisca Wijmenga; Cordelia Langford; Sarah Edkins; Robert Andrews; Hannah Blackburn; Amy Strange; Gavin Band; Richard D Pearson; Damjan Vukcevic; Chris C A Spencer; Panos Deloukas; Ulrich Mrowietz; Stefan Schreiber; Stephan Weidinger; Sulev Koks; Külli Kingo; Tonu Esko; Andres Metspalu; Henry W Lim; John J Voorhees; Michael Weichenthal; H Erich Wichmann; Vinod Chandran; Cheryl F Rosen; Proton Rahman; Dafna D Gladman; Christopher E M Griffiths; Andre Reis; Juha Kere; Rajan P Nair; Andre Franke; Jonathan N W N Barker; Goncalo R Abecasis; James T Elder; Richard C Trembath
Journal:  Nat Genet       Date:  2012-11-11       Impact factor: 38.330

7.  Genotype imputation with thousands of genomes.

Authors:  Bryan Howie; Jonathan Marchini; Matthew Stephens
Journal:  G3 (Bethesda)       Date:  2011-11-01       Impact factor: 3.154

8.  Genome-wide meta-analysis in alopecia areata resolves HLA associations and reveals two new susceptibility loci.

Authors:  Regina C Betz; Lynn Petukhova; Stephan Ripke; Hailiang Huang; Androniki Menelaou; Silke Redler; Tim Becker; Stefanie Heilmann; Tarek Yamany; Madeliene Duvic; Maria Hordinsky; David Norris; Vera H Price; Julian Mackay-Wiggan; Annemieke de Jong; Gina M DeStefano; Susanne Moebus; Markus Böhm; Ulrike Blume-Peytavi; Hans Wolff; Gerhard Lutz; Roland Kruse; Li Bian; Christopher I Amos; Annette Lee; Peter K Gregersen; Bettina Blaumeiser; David Altshuler; Raphael Clynes; Paul I W de Bakker; Markus M Nöthen; Mark J Daly; Angela M Christiano
Journal:  Nat Commun       Date:  2015-01-22       Impact factor: 14.919

9.  A global reference for human genetic variation.

Authors:  Adam Auton; Lisa D Brooks; Richard M Durbin; Erik P Garrison; Hyun Min Kang; Jan O Korbel; Jonathan L Marchini; Shane McCarthy; Gil A McVean; Gonçalo R Abecasis
Journal:  Nature       Date:  2015-10-01       Impact factor: 49.962

10.  A reference panel of 64,976 haplotypes for genotype imputation.

Authors:  Shane McCarthy; Sayantan Das; Warren Kretzschmar; Olivier Delaneau; Andrew R Wood; Alexander Teumer; Hyun Min Kang; Christian Fuchsberger; Petr Danecek; Kevin Sharp; Yang Luo; Carlo Sidore; Alan Kwong; Nicholas Timpson; Seppo Koskinen; Scott Vrieze; Laura J Scott; He Zhang; Anubha Mahajan; Jan Veldink; Ulrike Peters; Carlos Pato; Cornelia M van Duijn; Christopher E Gillies; Ilaria Gandin; Massimo Mezzavilla; Arthur Gilly; Massimiliano Cocca; Michela Traglia; Andrea Angius; Jeffrey C Barrett; Dorrett Boomsma; Kari Branham; Gerome Breen; Chad M Brummett; Fabio Busonero; Harry Campbell; Andrew Chan; Sai Chen; Emily Chew; Francis S Collins; Laura J Corbin; George Davey Smith; George Dedoussis; Marcus Dorr; Aliki-Eleni Farmaki; Luigi Ferrucci; Lukas Forer; Ross M Fraser; Stacey Gabriel; Shawn Levy; Leif Groop; Tabitha Harrison; Andrew Hattersley; Oddgeir L Holmen; Kristian Hveem; Matthias Kretzler; James C Lee; Matt McGue; Thomas Meitinger; David Melzer; Josine L Min; Karen L Mohlke; John B Vincent; Matthias Nauck; Deborah Nickerson; Aarno Palotie; Michele Pato; Nicola Pirastu; Melvin McInnis; J Brent Richards; Cinzia Sala; Veikko Salomaa; David Schlessinger; Sebastian Schoenherr; P Eline Slagboom; Kerrin Small; Timothy Spector; Dwight Stambolian; Marcus Tuke; Jaakko Tuomilehto; Leonard H Van den Berg; Wouter Van Rheenen; Uwe Volker; Cisca Wijmenga; Daniela Toniolo; Eleftheria Zeggini; Paolo Gasparini; Matthew G Sampson; James F Wilson; Timothy Frayling; Paul I W de Bakker; Morris A Swertz; Steven McCarroll; Charles Kooperberg; Annelot Dekker; David Altshuler; Cristen Willer; William Iacono; Samuli Ripatti; Nicole Soranzo; Klaudia Walter; Anand Swaroop; Francesco Cucca; Carl A Anderson; Richard M Myers; Michael Boehnke; Mark I McCarthy; Richard Durbin
Journal:  Nat Genet       Date:  2016-08-22       Impact factor: 38.330

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  1 in total

1.  Integrative Approach to Reveal Cell Type Specificity and Gene Candidates for Psoriatic Arthritis Outside the MHC.

Authors:  Matthew T Patrick; Philip E Stuart; Kalpana Raja; Sunyi Chi; Zhi He; John J Voorhees; Trilokraj Tejasvi; Johann E Gudjonsson; J Michelle Kahlenberg; Vinod Chandran; Proton Rahman; Dafna D Gladman; Rajan P Nair; James T Elder; Lam C Tsoi
Journal:  Front Genet       Date:  2019-04-11       Impact factor: 4.772

  1 in total

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