Literature DB >> 24971990

Genome-wide association studies: applications and insights gained in Ophthalmology.

A Chandra1, D Mitry2, A Wright3, H Campbell4, D G Charteris5.   

Abstract

Genome-wide association studies (GWAS) use high-throughput genotyping technologies to genotype thousands of single-nucleotide polymorphisms (SNPs) and relate them to the development of clinical and quantitative traits. Their use has been highly successful in the field of ophthalmology, and since the advent of GWAS in 2005, many genes not previously suspected of having a role in disease have been identified and the findings replicated. We conducted an extensive literature review and describe the concept, design, advantages, and limitations of GWAS and provide a detailed description of the applications and discoveries of GWAS in the field of eye disease to date. There have been many novel findings revealing previously unknown biological insights in a diverse range of common ocular conditions. GWAS have been a highly successful modality for investigating the pathogenesis of a wide variety of ophthalmic conditions. The insights gained into the pathogenesis of disease provide not only a better understanding of underlying disease mechanism but also offer a rationale for targeted treatment and preventative strategies. Expansive international collaboration and standardised phenotyping will permit the continued success of this investigative technique.

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Mesh:

Year:  2014        PMID: 24971990      PMCID: PMC4166635          DOI: 10.1038/eye.2014.145

Source DB:  PubMed          Journal:  Eye (Lond)        ISSN: 0950-222X            Impact factor:   3.775


  113 in total

1.  FOXC1 is required for cell viability and resistance to oxidative stress in the eye through the transcriptional regulation of FOXO1A.

Authors:  Fred B Berry; Jonathan M Skarie; Farideh Mirzayans; Yannick Fortin; Thomas J Hudson; Vincent Raymond; Brian A Link; Michael A Walter
Journal:  Hum Mol Genet       Date:  2007-11-09       Impact factor: 6.150

2.  Replication analysis for severe diabetic retinopathy.

Authors:  Michael A Grassi; Anna Tikhomirov; Sudha Ramalingam; Kristine E Lee; S M Hosseini; Barbara E K Klein; Ronald Klein; Yves A Lussier; Nancy J Cox; Dan L Nicolae
Journal:  Invest Ophthalmol Vis Sci       Date:  2012-04-30       Impact factor: 4.799

3.  A genome-wide association study in the Japanese population confirms 9p21 and 14q23 as susceptibility loci for primary open angle glaucoma.

Authors:  Wael Osman; Siew-Kee Low; Atsushi Takahashi; Michiaki Kubo; Yusuke Nakamura
Journal:  Hum Mol Genet       Date:  2012-03-13       Impact factor: 6.150

4.  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

Review 5.  Genetic susceptibility of diabetic retinopathy.

Authors:  Shrena Patel; Haoyu Chen; Nicholas H Tinkham; Kang Zhang
Journal:  Curr Diab Rep       Date:  2008-08       Impact factor: 4.810

6.  CDKN2B polymorphism is associated with primary open-angle glaucoma (POAG) in the Afro-Caribbean population of Barbados, West Indies.

Authors:  Dan Cao; Xiaodong Jiao; Xing Liu; Anselm Hennis; M Cristina Leske; Barbara Nemesure; J Fielding Hejtmancik
Journal:  PLoS One       Date:  2012-06-27       Impact factor: 3.240

7.  Common variants at 9p21 and 8q22 are associated with increased susceptibility to optic nerve degeneration in glaucoma.

Authors:  Janey L Wiggs; Brian L Yaspan; Michael A Hauser; Jae H Kang; R Rand Allingham; Lana M Olson; Wael Abdrabou; Bao J Fan; Dan Y Wang; Wendy Brodeur; Donald L Budenz; Joseph Caprioli; Andrew Crenshaw; Kristy Crooks; Elizabeth Delbono; Kimberly F Doheny; David S Friedman; Douglas Gaasterland; Terry Gaasterland; Cathy Laurie; Richard K Lee; Paul R Lichter; Stephanie Loomis; Yutao Liu; Felipe A Medeiros; Cathy McCarty; Daniel Mirel; Sayoko E Moroi; David C Musch; Anthony Realini; Frank W Rozsa; Joel S Schuman; Kathleen Scott; Kuldev Singh; Joshua D Stein; Edward H Trager; Paul Vanveldhuisen; Douglas Vollrath; Gadi Wollstein; Sachiko Yoneyama; Kang Zhang; Robert N Weinreb; Jason Ernst; Manolis Kellis; Tomohiro Masuda; Don Zack; Julia E Richards; Margaret Pericak-Vance; Louis R Pasquale; Jonathan L Haines
Journal:  PLoS Genet       Date:  2012-04-26       Impact factor: 5.917

8.  Common variants on chromosome 9p21 are associated with normal tension glaucoma.

Authors:  Mitsuko Takamoto; Toshikatsu Kaburaki; Akihiko Mabuchi; Makoto Araie; Shiro Amano; Makoto Aihara; Atsuo Tomidokoro; Aiko Iwase; Fumihiko Mabuchi; Kenji Kashiwagi; Shiroaki Shirato; Noriko Yasuda; Hidetoshi Kawashima; Fumiko Nakajima; Jiro Numaga; Yoshiya Kawamura; Tsukasa Sasaki; Katsushi Tokunaga
Journal:  PLoS One       Date:  2012-07-05       Impact factor: 3.240

9.  What can genome-wide association studies tell us about the genetics of common disease?

Authors:  Mark M Iles
Journal:  PLoS Genet       Date:  2008-02       Impact factor: 5.917

10.  Common genetic determinants of intraocular pressure and primary open-angle glaucoma.

Authors:  Leonieke M E van Koolwijk; Wishal D Ramdas; M Kamran Ikram; Nomdo M Jansonius; Francesca Pasutto; Pirro G Hysi; Stuart Macgregor; Sarah F Janssen; Alex W Hewitt; Ananth C Viswanathan; Jacoline B ten Brink; S Mohsen Hosseini; Najaf Amin; Dominiek D G Despriet; Jacqueline J M Willemse-Assink; Rogier Kramer; Fernando Rivadeneira; Maksim Struchalin; Yurii S Aulchenko; Nicole Weisschuh; Matthias Zenkel; Christian Y Mardin; Eugen Gramer; Ulrich Welge-Lüssen; Grant W Montgomery; Francis Carbonaro; Terri L Young; Céline Bellenguez; Peter McGuffin; Paul J Foster; Fotis Topouzis; Paul Mitchell; Jie Jin Wang; Tien Y Wong; Monika A Czudowska; Albert Hofman; Andre G Uitterlinden; Roger C W Wolfs; Paulus T V M de Jong; Ben A Oostra; Andrew D Paterson; David A Mackey; Arthur A B Bergen; André Reis; Christopher J Hammond; Johannes R Vingerling; Hans G Lemij; Caroline C W Klaver; Cornelia M van Duijn
Journal:  PLoS Genet       Date:  2012-05-03       Impact factor: 5.917

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  5 in total

Review 1.  IMI - Myopia Genetics Report.

Authors:  Milly S Tedja; Annechien E G Haarman; Magda A Meester-Smoor; Jaakko Kaprio; David A Mackey; Jeremy A Guggenheim; Christopher J Hammond; Virginie J M Verhoeven; Caroline C W Klaver
Journal:  Invest Ophthalmol Vis Sci       Date:  2019-02-28       Impact factor: 4.799

Review 2.  Updates on Genes and Genetic Mechanisms Implicated in Primary Angle-Closure Glaucoma.

Authors:  Altaf A Kondkar
Journal:  Appl Clin Genet       Date:  2021-03-09

Review 3.  The Genetic Architecture of Non-Syndromic Rhegmatogenous Retinal Detachment.

Authors:  Malik Moledina; David G Charteris; Aman Chandra
Journal:  Genes (Basel)       Date:  2022-09-19       Impact factor: 4.141

Review 4.  Corneal cell therapy: with iPSCs, it is no more a far-sight.

Authors:  Koushik Chakrabarty; Rohit Shetty; Arkasubhra Ghosh
Journal:  Stem Cell Res Ther       Date:  2018-10-25       Impact factor: 6.832

Review 5.  Do Genomic Factors Play a Role in Diabetic Retinopathy?

Authors:  Andrea P Cabrera; Finny Monickaraj; Sampathkumar Rangasamy; Sam Hobbs; Paul McGuire; Arup Das
Journal:  J Clin Med       Date:  2020-01-14       Impact factor: 4.241

  5 in total

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