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Open AccessJournal ArticleDOI

Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations

Phuwanat Sakornsakolpat, +61 more
- 25 Feb 2019 - 
- Vol. 51, Iss: 3, pp 494-505
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TLDR
This paper performed a genome-wide association study in 35,735 cases and 222,076 controls from the UK Biobank and additional studies from the International COPD Genetics Consortium and identified 82 loci associated with P < 5'×'10'8; 47 of these were previously described in association with either COPD or population-based measures of lung function.
Abstract
Chronic obstructive pulmonary disease (COPD) is the leading cause of respiratory mortality worldwide. Genetic risk loci provide new insights into disease pathogenesis. We performed a genome-wide association study in 35,735 cases and 222,076 controls from the UK Biobank and additional studies from the International COPD Genetics Consortium. We identified 82 loci associated with P < 5 × 10-8; 47 of these were previously described in association with either COPD or population-based measures of lung function. Of the remaining 35 new loci, 13 were associated with lung function in 79,055 individuals from the SpiroMeta consortium. Using gene expression and regulation data, we identified functional enrichment of COPD risk loci in lung tissue, smooth muscle, and several lung cell types. We found 14 COPD loci shared with either asthma or pulmonary fibrosis. COPD genetic risk loci clustered into groups based on associations with quantitative imaging features and comorbidities. Our analyses provide further support for the genetic susceptibility and heterogeneity of COPD.

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The genetic architecture of type 2 diabetes

Christian Fuchsberger, +300 more
TL;DR: Large-scale sequencing does not support the idea that lower-frequency variants have a major role in predisposition to type 2 diabetes, but most fell within regions previously identified by genome-wide association studies.
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Genome-Wide Association Study of Susceptibility to Idiopathic Pulmonary Fibrosis.

Richard J. Allen, +77 more
TL;DR: The observation that decreased DEPTOR expression associates with increased susceptibility to IPF supports recent studies demonstrating the importance of mTOR signaling in lung fibrosis, and new signals of association implicating KIF15 and MAD1L1 suggest a possible role of mitotic spindle-assembly genes in IPF susceptibility.
Journal ArticleDOI

Airway inflammation in COPD: progress to precision medicine

TL;DR: Current and future biomarker approaches to assess inflammation in COPD are described and how this might reveal tractable approaches to precision medicine and unmask important host–environment interactions leading to airway inflammation are described.
Journal ArticleDOI

A single-cell atlas of chromatin accessibility in the human genome

TL;DR: In this article, single-cell chromatin accessibility assays to 30 adult human tissue types from multiple donors were used to profile the activity of gene regulatory elements in diverse cell types and tissues in the human body.
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Recent advances in chronic obstructive pulmonary disease pathogenesis: from disease mechanisms to precision medicine.

TL;DR: Recent developments related to the abnormal inflammatory response, ECM and age‐related changes, structural changes in the small airways and the role of sex‐related differences are discussed, which are all relevant to explain the individual differences in the disease pathology of COPD and improve disease endotyping.
References
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Journal ArticleDOI

Standardisation of spirometry

TL;DR: This research presents a novel and scalable approach called “Standardation of LUNG FUNCTION TESTing” that combines “situational awareness” and “machine learning” to solve the challenge of integrating nanofiltration into the energy system.
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Second-generation PLINK: rising to the challenge of larger and richer datasets

TL;DR: The second-generation versions of PLINK will offer dramatic improvements in performance and compatibility, and for the first time, users without access to high-end computing resources can perform several essential analyses of the feature-rich and very large genetic datasets coming into use.
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The Connectivity Map: Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease

TL;DR: The first installment of a reference collection of gene-expression profiles from cultured human cells treated with bioactive small molecules is created, and it is demonstrated that this “Connectivity Map” resource can be used to find connections among small molecules sharing a mechanism of action, chemicals and physiological processes, and diseases and drugs.
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