Chronic obstructive pulmonary disease (COPD) is a major public health burden, and it is the third leading cause of death in the US. Genome-wide association studies (GWAS) in COPD have successfully identified disease-associated genetic loci, but most of the genetic susceptibility to this disease has yet to be explained. The translatin of GWAS discoveries into new disease-modifying treatments requires the continued discovery and functional characterization of GWAS-identified loci. It is clear that many GWAS loci are gene expression quantitative trait loci (i.e. eQTLs) and that fine modulation of gene expression patterns is a key component of the genetic architecture of complex diseases, including COPD. COPD is a complex clinical syndrome that may consist of distinct biological processes. One fruitful approach to this complexity is to identify COPD-associated phenotypes, such as emphysema, that have their own strong GWAS signals and distinct biology. Emphysema is a heritable phenotype. However, few studies have been able to generate emphysema phenotypes in samples large enough for adequately-powered GWAS, and existing quantitative emphysema measures have known limitations. Using a novel, approach for emphysema quantification from lung computed tomography scans based on local histograms, we have generated detailed quantitative emphysema measures on over 9,000 subjects in the COPDGene Study that are more informative than traditional emphysema measures. This proposal is based on two hypotheses - 1) GWAS of local histogram emphysema patterns will identify novel emphysema-associated genetic variants and 2) genetic control of gene expression is an important mechanism by which genetic variation impacts the emphysema phenotype. To investigate these hypotheses, we propose the following specific aims.
In Aim 1, updated LHE phenotypes will be generated in the COPDGene and ECLIPSE studies, and GWAS will be performed to identify emphysema-associated genetic variants.
In Aim 2, eQTL analysis using RNA-Seq data will be performed in bronchial epithelial cells (BECs) and whole blood samples from COPDGene subjects with a range of emphysema. These eQTL and GWAS results will be integrated to identify novel emphysema-associated loci and link these loci to the genes through which they exert their phenotypic effects.
In Aim 3 a, we will identify genomic regions that are likely to be causally-linked to emphysema susceptibility through an innovative approach integrating GWAS, eQTL, and functional regulatory data from the ENCODE and Roadmap Epigenomics projects.
In Aim 3 b, the functional relevance of these genomic regions will be examined in cell-based functional assays in BEC cell lines. This work builds on strong preliminary data, and the research team has a history of close collaboration and multidisciplinary expertise in areas critical for this project.

Public Health Relevance

COPD is the third leading cause of death in the US, and emphysema is a key aspect of COPD that is partly determined by genetics. The goal of this research is to identify genetic variants that contribute to the development of emphysema and to understand the mechanism by which these variants act to cause disease. Understanding these genetic risk factors and their functional mechanisms can lead to opportunities for the development of new treatments to improve the health of individuals at risk or suffering from COPD and emphysema.

Agency
National Institute of Health (NIH)
Institute
National Heart, Lung, and Blood Institute (NHLBI)
Type
Research Project (R01)
Project #
1R01HL124233-01
Application #
8762578
Study Section
Genetics of Health and Disease Study Section (GHD)
Program Officer
Gan, Weiniu
Project Start
2014-09-01
Project End
2019-05-31
Budget Start
2014-09-01
Budget End
2015-05-31
Support Year
1
Fiscal Year
2014
Total Cost
Indirect Cost
Name
Brigham and Women's Hospital
Department
Type
DUNS #
City
Boston
State
MA
Country
United States
Zip Code
02115
Hardin, Megan; Cho, Michael H; Sharma, Sunita et al. (2017) Sex-Based Genetic Association Study Identifies CELSR1 as a Possible Chronic Obstructive Pulmonary Disease Risk Locus among Women. Am J Respir Cell Mol Biol 56:332-341
Ross, James C; Castaldi, Peter J; Cho, Michael H et al. (2017) A Bayesian Nonparametric Model for Disease Subtyping: Application to Emphysema Phenotypes. IEEE Trans Med Imaging 36:343-354
Busch, Robert; Hobbs, Brian D; Zhou, Jin et al. (2017) Genetic Association and Risk Scores in a Chronic Obstructive Pulmonary Disease Meta-analysis of 16,707 Subjects. Am J Respir Cell Mol Biol 57:35-46
McDonald, Merry-Lynn Noelle; Won, Sungho; Mattheisen, Manuel et al. (2017) Body mass index change in gastrointestinal cancer and chronic obstructive pulmonary disease is associated with Dedicator of Cytokinesis 1. J Cachexia Sarcopenia Muscle 8:428-436
Hobbs, Brian D; de Jong, Kim; Lamontagne, Maxime et al. (2017) Genetic loci associated with chronic obstructive pulmonary disease overlap with loci for lung function and pulmonary fibrosis. Nat Genet 49:426-432
Boueiz, Adel; Lutz, Sharon M; Cho, Michael H et al. (2017) Genome-Wide Association Study of the Genetic Determinants of Emphysema Distribution. Am J Respir Crit Care Med 195:757-771
Halper-Stromberg, Eitan; Cho, Michael H; Wilson, Carla et al. (2017) Visual Assessment of Chest Computed Tomographic Images Is Independently Useful for Genetic Association Analysis in Studies of Chronic Obstructive Pulmonary Disease. Ann Am Thorac Soc 14:33-40
Castaldi, Peter J; Vachani, Anil (2016) Recognizing the Many Faces of Chronic Obstructive Pulmonary Disease. Am J Respir Crit Care Med 193:1190-2
McGeachie, M J; Yates, K P; Zhou, X et al. (2016) Patterns of Growth and Decline in Lung Function in Persistent Childhood Asthma. N Engl J Med 374:1842-1852
McGeachie, Michael J; Yates, Katherine P; Zhou, Xiaobo et al. (2016) Genetics and Genomics of Longitudinal Lung Function Patterns in Individuals with Asthma. Am J Respir Crit Care Med 194:1465-1474

Showing the most recent 10 out of 21 publications