Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 384
Release date: Feb 13 2014
Last update date: Aug 16 2018
Access: Public
Diseases: Pulmonary Disease, Chronic Obstructive
Dataset link Transcriptome-based network analysis reveals a spectrum model of human macrophage activation [Expression]

Experimental Protocol


Illumina: To better understand the transcriptional program of human macrophages a set of different stimuli were used to activate and differentiate human macrophages in vitro. These macrophages were then assessed by transcriptomics and analyzed by different approaches using gene co-regulation analysis, SOM-clustering, hierarchical clustering, reverse network engineering and statistical models such as ANOVA. Affymetrix: To understand the relationship of in vivo macrophages with in vitro stimulations, two alveaolar macrophage datasets GSE13896 (COPD patients, smokers and non-smokers) and GSE2125 (asthmatic patients, smokers and non-smokers) were downloaded and processed together. In total, the combined dataset consists of 12 COPD samples, 15 asthmatic, 49 smoker samples and 39 non-smokers as control. Clustering of the samples (such as correlation network, principal component analysis and hierarchical clustering) and Gene Set Enrichment Analysis was performed on differentially expressed genes from 28 in vitro conditions.

Repositories


GEO

GSE46903

ArrayExpress

E-GEOD-46903

BioProject

PRJNA202989

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Contact


Joachim Schultze

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