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Idiopathic Pulmonary Fibrosis Is Associated with Common Genetic Variants and Limited Rare Variants

Authors
 Anna L Peljto  ;  Rachel Z Blumhagen  ;  Avram D Walts  ;  Jonathan Cardwell  ;  Julia Powers  ;  Tamera J Corte  ;  Joanne L Dickinson  ;  Ian Glaspole  ;  Yuben P Moodley  ;  Martina Koziar Vasakova  ;  Elisabeth Bendstrup  ;  Jesper R Davidsen  ;  Raphael Borie  ;  Bruno Crestani  ;  Philippe Dieude  ;  Francesco Bonella  ;  Ulrich Costabel  ;  Gunnar Gudmundsson  ;  Seamas C Donnelly  ;  Jim Egan  ;  Michael T Henry  ;  Michael P Keane  ;  Marcus P Kennedy  ;  Cormac McCarthy  ;  Aoife N McElroy  ;  Joshua A Olaniyi  ;  Katherine M A O'Reilly  ;  Luca Richeldi  ;  Paolo M Leone  ;  Venerino Poletti  ;  Francesco Puppo  ;  Sara Tomassetti  ;  Valentina Luzzi  ;  Nurdan Kokturk  ;  Nesrin Mogulkoc  ;  Christine A Fiddler  ;  Nikhil Hirani  ;  R Gisli Jenkins  ;  Toby M Maher  ;  Philip L Molyneaux  ;  Helen Parfrey  ;  Rebecca Braybrooke  ;  Timothy S Blackwell  ;  Peter D Jackson  ;  Steven D Nathan  ;  Mary K Porteous  ;  Kevin K Brown  ;  Jason D Christie  ;  Harold R Collard  ;  Oliver Eickelberg  ;  Elena E Foster  ;  Kevin F Gibson  ;  Marilyn Glassberg  ;  Daniel J Kass  ;  Jonathan A Kropski  ;  David Lederer  ;  Angela L Linderholm  ;  Jim Loyd  ;  Susan K Mathai  ;  Sydney B Montesi  ;  Imre Noth  ;  Justin M Oldham  ;  Amy J Palmisciano  ;  Cristina A Reichner  ;  Mauricio Rojas  ;  Jesse Roman  ;  Neil Schluger  ;  Barry S Shea  ;  Jeffrey J Swigris  ;  Paul J Wolters  ;  Yingze Zhang  ;  Cecilia M A Prele  ;  Juan I Enghelmayer  ;  Maria Otaola  ;  Christopher J Ryerson  ;  Mauricio Salinas  ;  Martina Sterclova  ;  Tewodros H Gebremariam  ;  Marjukka Myllärniemi  ;  Roberto G Carbone  ;  Haruhiko Furusawa  ;  Masaki Hirose  ;  Yoshikazu Inoue  ;  Yasunari Miyazaki  ;  Ken Ohta  ;  Shin Ohta  ;  Tsukasa Okamoto  ;  Dong Soon Kim  ;  Annie Pardo  ;  Moises Selman  ;  Alvaro U Aranda  ;  Moo Suk Park  ;  Jong Sun Park  ;  Jin Woo Song  ;  Maria Molina-Molina  ;  Lurdes Planas-Cerezales  ;  Gunilla Westergren-Thorsson  ;  Albert V Smith  ;  Ani W Manichaikul  ;  John S Kim  ;  Stephen S Rich  ;  Elizabeth C Oelsner  ;  R Graham Barr  ;  Jerome I Rotter  ;  Josee Dupuis  ;  George O'Connor  ;  Ramachandran S Vasan  ;  Michael H Cho  ;  Edwin K Silverman  ;  Marvin I Schwarz  ;  Mark P Steele  ;  Joyce S Lee  ;  Ivana V Yang  ;  Tasha E Fingerlin  ;  David A Schwartz 
Citation
 AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, Vol.207(9) : 1194-1202, 2023-05 
Journal Title
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE
ISSN
 1073-449X 
Issue Date
2023-05
MeSH
Exome ; Humans ; Idiopathic Pulmonary Fibrosis* / genetics ; Whole Genome Sequencing
Keywords
TOPMed ; genetic association studies ; interstitial lung disease ; telomerase ; whole-genome sequencing
Abstract
Rationale: Idiopathic pulmonary fibrosis (IPF) is a rare, irreversible, and progressive disease of the lungs. Common genetic variants, in addition to nongenetic factors, have been consistently associated with IPF. Rare variants identified by candidate gene, family-based, and exome studies have also been reported to associate with IPF. However, the extent to which rare variants, genome-wide, may contribute to the risk of IPF remains unknown.

Objectives: We used whole-genome sequencing to investigate the role of rare variants, genome-wide, on IPF risk.

Methods: As part of the Trans-Omics for Precision Medicine Program, we sequenced 2,180 cases of IPF. Association testing focused on the aggregated effect of rare variants (minor allele frequency <0.01) within genes or regions. We also identified individual rare variants that are influential within genes and estimated the heritability of IPF on the basis of rare and common variants.

Measurements and Main Results: Rare variants in both TERT and RTEL1 were significantly associated with IPF. A single rare variant in each of the TERT and RTEL1 genes was found to consistently influence the aggregated test statistics. There was no significant evidence of association with other previously reported rare variants. The SNP heritability of IPF was estimated to be 32% (SE= 3%).

Conclusions: Rare variants within the TERT and RTEL1 genes and well-established common variants have the largest contribution to IPF risk overall. Efforts in risk profiling or the development of therapies for IPF that focus on TERT, RTEL1, common variants, and environmental risk factors are likely to have the largest impact on this complex disease.
Full Text
https://www.atsjournals.org/doi/10.1164/rccm.202207-1331OC
DOI
10.1164/rccm.202207-1331OC
Appears in Collections:
1. College of Medicine (의과대학) > Dept. of Internal Medicine (내과학교실) > 1. Journal Papers
Yonsei Authors
Park, Moo Suk(박무석) ORCID logo https://orcid.org/0000-0003-0820-7615
URI
https://ir.ymlib.yonsei.ac.kr/handle/22282913/195520
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