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Series GSE100281 Query DataSets for GSE100281
Status Public on Aug 16, 2018
Title COPD is accompanied by coordinated transcriptional perturbation in the quadriceps affecting the mitochondria and ECM
Organism Homo sapiens
Experiment type Expression profiling by array
Summary In this experiment we catalogue transcriptional changes accompanying COPD in the quadriceps. We measure global gene transcription in the quadriceps using Affymetrix HuGene 1.1 ST arrays in an unselected cohort of 79 stable COPD patients in secondary care and 16 healthy age-and gender-matched controls.
We identified 1,826 differentially expressed transcript clusters, comprising 6 modules of co-expressed genes, which differentially associate with clinical and immunological features of COPD.
 
Overall design RNA samples derived from 95 quadriceps biopsy specimens were analysed as part of this study (79 COPD, 16 healthy). Differential expression between healthy and COPD samples was estimated using Limma (3.22.7). P-values were adjusted for multiple testing using the Benjamini & Hochberg method to control the False Discovery Rate below 5%. Patterns of transcriptional co-ordination were sought amongst differentially expressed genes through Weighted Gene Co-expression Network Analysis (WGCNA).
 
Contributor(s) Willis-Owen SA, Thompson A, Kemp P, Polkey MI, Cookson WO, Moffatt MF, Natanek SA
Citation(s) 30111857
Submission date Jun 21, 2017
Last update date Jul 25, 2021
Contact name William Cookson
Organization name Imperial College
Department National Heart and Lung Institute
Street address Guy Scadding Building, Dovehouse Street
City London
ZIP/Postal code SW3 6LY
Country United Kingdom
 
Platforms (1)
GPL11532 [HuGene-1_1-st] Affymetrix Human Gene 1.1 ST Array [transcript (gene) version]
Samples (95)
GSM2677045 Quadriceps-COPD-C14
GSM2677046 Quadriceps-COPD-C15
GSM2677047 Quadriceps-COPD-C16
Relations
BioProject PRJNA391244

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE100281_RAW.tar 385.1 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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