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Showing 1 to 12 of 12 entries
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Subtyping Chronic Obstructive Pulmonary Disease Using Peripheral Blood Proteomics.

Chronic obstructive pulmonary diseases (Miami, Fla.)

Zarei S, Mirtar A, Morrow JD, Castaldi PJ, Belloni P, Hersh CP.
PMID: 28848918
Chronic Obstr Pulm Dis. 2017 Feb 08;4(2):97-108. doi: 10.15326/jcopdf.4.2.2016.0147.

Chronic obstructive pulmonary disease (COPD) is a heterogeneous disorder. COPD patients may have different clinical features, imaging characteristics and natural history. Multiple studies have investigated heterogeneity using statistical methods such as unsupervised clustering to define different subgroups of COPD...

Estimating gene regulatory networks with pandaR.

Bioinformatics (Oxford, England)

Schlauch D, Paulson JN, Young A, Glass K, Quackenbush J.
PMID: 28334344
Bioinformatics. 2017 Jul 15;33(14):2232-2234. doi: 10.1093/bioinformatics/btx139.

CONTACT: [email protected] or [email protected] AND IMPLEMENTATION: PandaR is provided as a Bioconductor R Package and is available at bioconductor.org/packages/pandaR.

Diagnosing alpha-1 antitrypsin deficiency: the first step in precision medicine.

F1000Research

Hersh CP.
PMID: 29225784
F1000Res. 2017 Nov 27;6:2049. doi: 10.12688/f1000research.12399.1. eCollection 2017.

Severe alpha-1 antitrypsin (AAT) deficiency is one of the most common serious genetic diseases in adults of European descent. Individuals with AAT deficiency have a greatly increased risk for emphysema and liver disease. Other manifestations include bronchiectasis, necrotizing panniculitis...

Sex-specific associations with DNA methylation in lung tissue demonstrate smoking interactions.

Epigenetics

Koo HK, Morrow J, Kachroo P, Tantisira K, Weiss ST, Hersh CP, Silverman EK, DeMeo DL.
PMID: 32962511
Epigenetics. 2021 Jun;16(6):692-703. doi: 10.1080/15592294.2020.1819662. Epub 2020 Sep 22.

Cigarette smoking impacts DNA methylation, but the investigation of sex-specific features of lung tissue DNA methylation in smokers has been limited. Women appear more susceptible to cigarette smoke, and often develop more severe lung disease at an earlier age...

Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes.

NPJ systems biology and applications

Sharma A, Halu A, Decano JL, Padi M, Liu YY, Prasad RB, Fadista J, Santolini M, Menche J, Weiss ST, Vidal M, Silverman EK, Aikawa M, Barabási AL, Groop L, Loscalzo J.
PMID: 29977601
NPJ Syst Biol Appl. 2018 Jul 03;4:25. doi: 10.1038/s41540-018-0057-0. eCollection 2018.

Probing the dynamic control features of biological networks represents a new frontier in capturing the dysregulated pathways in complex diseases. Here, using patient samples obtained from a pancreatic islet transplantation program, we constructed a tissue-specific gene regulatory network and...

A Disintegrin and A Metalloproteinase-9 (ADAM9): A Novel Proteinase Culprit with Multifarious Contributions to COPD.

American journal of respiratory and critical care medicine

Wang X, Polverino F, Rojas-Quintero J, Zhang D, Sánchez J, Yambayev I, Lindqvist E, Virtala R, Djukanovic R, Davies DE, Wilson S, O'Donnell R, Cunoosamy D, Hazon P, Higham A, Singh D, Olsson H, Owen CA.
PMID: 29864380
Am J Respir Crit Care Med. 2018 Jun 04; doi: 10.1164/rccm.201711-2300OC. Epub 2018 Jun 04.

INTRODUCTION: Proteinases with a disintegrin and a metalloproteinase domain (ADAMs) have not been well studied in COPD. We investigated whether ADAM9 is linked to COPD in humans and mice.METHODS: ADAM9 blood and lung levels were measured in COPD patients...

Chronic Obstructive Pulmonary Disease Genetics: A Review of the Past and a Look Into the Future.

Chronic obstructive pulmonary diseases (Miami, Fla.)

Hardin M, Silverman EK.
PMID: 28848809
Chronic Obstr Pulm Dis. 2014 May 06;1(1):33-46. doi: 10.15326/jcopdf.1.1.2014.0120.

Chronic obstructive pulmonary disease (COPD) affects over 10 million Americans.

Folliculin regulates cell-cell adhesion, AMPK, and mTORC1 in a cell-type-specific manner in lung-derived cells.

Physiological reports

Khabibullin D, Medvetz DA, Pinilla M, Hariharan V, Li C, Hergrueter A, Laucho Contreras M, Zhang E, Parkhitko A, Yu JJ, Owen CA, Huang H, Baron RM, Henske EP.
PMID: 25121506
Physiol Rep. 2014 Aug 12;2(8). doi: 10.14814/phy2.12107. Print 2014 Aug 01.

Germline loss-of-function BHD mutations cause cystic lung disease and hereditary pneumothorax, yet little is known about the impact of BHD mutations in the lung. Folliculin (FLCN), the product of the Birt-Hogg-Dube (BHD) gene, has been linked to altered cell-cell...

Haploinsufficiency of Hedgehog interacting protein causes increased emphysema induced by cigarette smoke through network rewiring.

Genome medicine

Lao T, Glass K, Qiu W, Polverino F, Gupta K, Morrow J, Mancini JD, Vuong L, Perrella MA, Hersh CP, Owen CA, Quackenbush J, Yuan GC, Silverman EK, Zhou X.
PMID: 25763110
Genome Med. 2015 Feb 14;7(1):12. doi: 10.1186/s13073-015-0137-3. eCollection 2015.

BACKGROUND: The HHIP gene, encoding Hedgehog interacting protein, has been implicated in chronic obstructive pulmonary disease (COPD) by genome-wide association studies (GWAS), and our subsequent studies identified a functional upstream genetic variant that decreased HHIP transcription. However, little is...

Risk loci for chronic obstructive pulmonary disease: a genome-wide association study and meta-analysis.

The Lancet. Respiratory medicine

Cho MH, McDonald ML, Zhou X, Mattheisen M, Castaldi PJ, Hersh CP, Demeo DL, Sylvia JS, Ziniti J, Laird NM, Lange C, Litonjua AA, Sparrow D, Casaburi R, Barr RG, Regan EA, Make BJ, Hokanson JE, Lutz S, Dudenkov TM, Farzadegan H, Hetmanski JB, Tal-Singer R, Lomas DA, Bakke P, Gulsvik A, Crapo JD, Silverman EK, Beaty TH.
PMID: 24621683
Lancet Respir Med. 2014 Mar;2(3):214-25. doi: 10.1016/S2213-2600(14)70002-5. Epub 2014 Feb 07.

BACKGROUND: The genetic risk factors for susceptibility to chronic obstructive pulmonary disease (COPD) are still largely unknown. Additional genetic variants are likely to be identified by genome-wide association studies in larger cohorts or specific subgroups. We sought to identify...

Increased expression of A Proliferation-inducing Ligand (APRIL) in lung leukocytes and alveolar epithelial cells in COPD patients with non small cell lung cancer: a possible link between COPD and lung cancer?.

Multidisciplinary respiratory medicine

Polverino F, Laucho-Contreras M, Rojas Quintero J, Divo M, Pinto-Plata V, Sholl L, de-Torres JP, Celli BR, Owen CA.
PMID: 27047662
Multidiscip Respir Med. 2016 Apr 04;11:17. doi: 10.1186/s40248-016-0051-6. eCollection 2016.

BACKGROUND: Chronic Obstructive Pulmonary Disease (COPD) is characterized by an excessive activation of the adaptive immune system and, in particular, uncontrolled expansion of the B-cell pool. One of the key promoters of B cell expansion is A PRoliferation-Inducing Ligand...

Sex-specific associations with DNA methylation in lung tissue demonstrate smoking interactions.

Epigenetics

Koo HK, Morrow J, Kachroo P, Tantisira K, Weiss ST, Hersh CP, Silverman EK, DeMeo DL.
PMID: 32962511
Epigenetics. 2021 Jun;16(6):692-703. doi: 10.1080/15592294.2020.1819662. Epub 2020 Sep 22.

Cigarette smoking impacts DNA methylation, but the investigation of sex-specific features of lung tissue DNA methylation in smokers has been limited. Women appear more susceptible to cigarette smoke, and often develop more severe lung disease at an earlier age...

Showing 1 to 12 of 12 entries