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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Systems biology of interstitial lung diseases

ABSTRACT: This SuperSeries is composed of the following subset Series: GSE21369: Gene expression profiles of interstitial lung disease (ILD) patients GSE21394: MicroRNA expression profiles of interstitial lung disease (ILD) patients Refer to individual Series

ORGANISM(S): Homo sapiens

SUBMITTER: Ji-Hoon Cho

PROVIDER: E-GEOD-21411 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Systems biology of interstitial lung diseases: integration of mRNA and microRNA expression changes.

Cho Ji-Hoon JH Gelinas Richard R Wang Kai K Etheridge Alton A Piper Melissa G MG Batte Kara K Dakhallah Duaa D Price Jennifer J Bornman Dan D Zhang Shile S Marsh Clay C Galas David D

BMC medical genomics 20110117

<h4>Background</h4>The molecular pathways involved in the interstitial lung diseases (ILDs) are poorly understood. Systems biology approaches, with global expression data sets, were used to identify perturbed gene networks, to gain some understanding of the underlying mechanisms, and to develop specific hypotheses relevant to these chronic lung diseases.<h4>Methods</h4>Lung tissue samples from patients with different types of ILD were obtained from the Lung Tissue Research Consortium and total c ...[more]

PMID: 21241464

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MicroRNA expression profiles of interstitial lung disease (ILD) patients

Project description:The mechanisms and molecular pathways underlying interstitial lung diseases (ILDs) are poorly understood. Systems biology approaches were used to identify perturbed networks in these disease states to gain a better understanding of the underlying mechanisms of disease. Through profiling genes and miRNAs, we found subsets of genes and miRNAs that distinguish different disease stages, ILDs from controls, and idiopathic pulmonary fibrosis (IPF) from non-specific interstitial pneumonitis (NSIP). Traditional pathway analysis revealed several disease-associated modules involving genes from the TGF-beta, Wnt, focal adhesion and smooth muscle actin pathways that may be involved in advancing fibrosis. A comprehensively integrative approach was used to construct a global gene regulatory network based on the perturbation of key regulatory elements, transcriptional factors and miRNAs. The data also demonstrated that several subnetworks were significantly associated with key molecules involved in the diseases. We present a broad overview of the disease at a molecular level and discuss several possibly key regulatory molecular circuits that could play central roles in facilitating the progression of ILDs. Lung tissue samples from thirty patients with IPF or related disorders were obtained from the Lung Tissue Research Consortium (www.ltrcpublic.org). Ten samples came from patients who had been diagnosed with usual interstitial pneumonia/ idiopathic pulmonary fibrosis (UIP/IPF), nine samples came from patients with non-specific interstitial pneumonia (NSIP), four from patients with uncharacterized fibrosis, and the remaining samples came from patients with other ILD variants. Biopsies from uninvolved lung tissue from lung cancer patients (5 samples) and from one lung transplant patient were used as controls for comparison with the ILD samples.

2011-04-19 | E-GEOD-21394 | biostudies-arrayexpress

Gene expression profiles of interstitial lung disease (ILD) patients

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