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Multi-trait genome-wide association study identifies new loci associated with optic disc parameters

Multi-trait genome-wide association study identifies new loci associated with optic disc parameters
Multi-trait genome-wide association study identifies new loci associated with optic disc parameters

A new avenue of mining published genome-wide association studies includes the joint analysis of related traits. The power of this approach depends on the genetic correlation of traits, which reflects the number of pleiotropic loci, i.e. genetic loci influencing multiple traits. Here, we applied new meta-analyses of optic nerve head (ONH) related traits implicated in primary open-angle glaucoma (POAG); intraocular pressure and central corneal thickness using Haplotype reference consortium imputations. We performed a multi-trait analysis of ONH parameters cup area, disc area and vertical cup-disc ratio. We uncover new variants; rs11158547 in PPP1R36-PLEKHG3 and rs1028727 near SERPINE3 at genome-wide significance that replicate in independent Asian cohorts imputed to 1000 Genomes. At this point, validation of these variants in POAG cohorts is hampered by the high degree of heterogeneity. Our results show that multi-trait analysis is a valid approach to identify novel pleiotropic variants for ONH.

Bonnemaijer, Pieter W.M.
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Leeuwen, Elisabeth M.van
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Springelkamp, Henriette
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Budenz, Don
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Bailey, Jessica Cooke
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Fingert, John
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Gaasterland, Douglas
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Haines, Jonathan L.
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Hark, Lisa
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Hauser, Michael
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Lee, Richard
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Lichter, Paul
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Carare, Roxana O.
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Ennis, Sarah
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Morgan, James E.
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Self, Jay
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Wilson, James F.
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Lotery, Andrew J.
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Cheng, Ching Yu
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International Glaucoma Genetics Consortium
NEIGHBORHOOD Consortium
UK Biobank Eye and Vision Consortium
Bonnemaijer, Pieter W.M.
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Leeuwen, Elisabeth M.van
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Iglesias, Adriana I.
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Gharahkhani, Puya
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Vitart, Veronique
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Khawaja, Anthony P.
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Simcoe, Mark
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Höhn, René
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Cree, Angela J.
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Khor, Chiea Cheun
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Pasutto, Francesca
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Young, Terrri L.
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Budenz, Don
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Fingert, John
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Gaasterland, Douglas
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Haines, Jonathan L.
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Hark, Lisa
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Hauser, Michael
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Kang, Jae Hee
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Kraft, Peter
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Lee, Richard
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Lichter, Paul
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Carare, Roxana O.
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Self, Jay
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Lotery, Andrew J.
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Cheng, Ching Yu
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International Glaucoma Genetics Consortium, NEIGHBORHOOD Consortium and UK Biobank Eye and Vision Consortium (2019) Multi-trait genome-wide association study identifies new loci associated with optic disc parameters. Communications Biology, 2 (1), [435]. (doi:10.1038/s42003-019-0634-9).

Record type: Article

Abstract

A new avenue of mining published genome-wide association studies includes the joint analysis of related traits. The power of this approach depends on the genetic correlation of traits, which reflects the number of pleiotropic loci, i.e. genetic loci influencing multiple traits. Here, we applied new meta-analyses of optic nerve head (ONH) related traits implicated in primary open-angle glaucoma (POAG); intraocular pressure and central corneal thickness using Haplotype reference consortium imputations. We performed a multi-trait analysis of ONH parameters cup area, disc area and vertical cup-disc ratio. We uncover new variants; rs11158547 in PPP1R36-PLEKHG3 and rs1028727 near SERPINE3 at genome-wide significance that replicate in independent Asian cohorts imputed to 1000 Genomes. At this point, validation of these variants in POAG cohorts is hampered by the high degree of heterogeneity. Our results show that multi-trait analysis is a valid approach to identify novel pleiotropic variants for ONH.

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Accepted/In Press date: 23 September 2019
e-pub ahead of print date: 27 November 2019
Published date: 1 December 2019

Identifiers

Local EPrints ID: 436345
URI: http://eprints.soton.ac.uk/id/eprint/436345
PURE UUID: cdb7e673-9d40-43e9-81f9-e18e34e438d3
ORCID for Angela J. Cree: ORCID iD orcid.org/0000-0002-1987-8900
ORCID for Roxana O. Carare: ORCID iD orcid.org/0000-0001-6458-3776
ORCID for Sarah Ennis: ORCID iD orcid.org/0000-0003-2648-0869
ORCID for Jane Gibson: ORCID iD orcid.org/0000-0002-0973-8285
ORCID for Jay Self: ORCID iD orcid.org/0000-0002-1030-9963
ORCID for Andrew J. Lotery: ORCID iD orcid.org/0000-0001-5541-4305

Catalogue record

Date deposited: 06 Dec 2019 17:30
Last modified: 06 Jun 2024 01:43

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Contributors

Author: Pieter W.M. Bonnemaijer
Author: Elisabeth M.van Leeuwen
Author: Adriana I. Iglesias
Author: Puya Gharahkhani
Author: Veronique Vitart
Author: Anthony P. Khawaja
Author: Mark Simcoe
Author: René Höhn
Author: Angela J. Cree ORCID iD
Author: Rob P. Igo
Author: Kathryn P. Burdon
Author: Jamie E. Craig
Author: Alex W. Hewitt
Author: Jost Jonas
Author: Chiea Cheun Khor
Author: Francesca Pasutto
Author: David A. Mackey
Author: Paul Mitchell
Author: Aniket Mishra
Author: Calvin Pang
Author: Louis R. Pasquale
Author: Henriette Springelkamp
Author: Gudmar Thorleifsson
Author: Unnur Thorsteinsdottir
Author: Ananth C. Viswanathan
Author: Robert Wojciechowski
Author: Tien Wong
Author: Terrri L. Young
Author: Tanja Zeller
Author: Rand Allingham
Author: Don Budenz
Author: Jessica Cooke Bailey
Author: John Fingert
Author: Douglas Gaasterland
Author: Teresa Gaasterland
Author: Jonathan L. Haines
Author: Lisa Hark
Author: Michael Hauser
Author: Jae Hee Kang
Author: Peter Kraft
Author: Richard Lee
Author: Paul Lichter
Author: Sarah Ennis ORCID iD
Author: Jane Gibson ORCID iD
Author: James E. Morgan
Author: Jay Self ORCID iD
Author: James F. Wilson
Author: Ching Yu Cheng
Corporate Author: International Glaucoma Genetics Consortium
Corporate Author: NEIGHBORHOOD Consortium
Corporate Author: UK Biobank Eye and Vision Consortium

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