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Series GSE34160 Query DataSets for GSE34160
Status Public on Jan 26, 2012
Title Expression data from peripheral blood - blood draws at Pre and Post time points of Allergen inhalation challenge (PAX.NGR and EDTA)
Organism Homo sapiens
Experiment type Expression profiling by array
Summary To determine differential gene expression in peripheral blood of asthmatic individuals undergoing allergen inhalation challenge, post-challenge compared to pre-challenge
 
Overall design Blood was collected immediately prior to, and two hours after challenge
The 8 PAXgene non-globin reduced (PAX.NGR) samples were combined with 10 EDTA samples (n=9) for one analysis (PAX.NGR+EDTA) comparing gene expression in whole blood between pre and post challenge using the following covariates: tube type, sex, age, PC20 at pre-challenge, and FEV1 after onset and 2h post challenge and the RNA integrity number.
Preprocessing and filtering were applied to the PAX.NGR+EDTA dataset using the Factor Analysis for Robust MicroArray Summarization (farms) package in R
The Linear Models for MicroArrays (limma) package was used to determine differential gene expression using a Benjamini Hochberg FDR of 5%.
 
Contributor(s) Kam SH, Singh A, He J, Ruan J, Gauvreau GM, O'Byrne PM, FitzGerald JM, Tebbutt SJ
Citation(s) 22316092
Submission date Dec 05, 2011
Last update date Jul 26, 2018
Contact name Scott Tebbutt
E-mail(s) scott.tebbutt@hli.ubc.ca
Organization name University of British Columbia
Department Medicine
Lab James Hogg Research Centre
Street address Room 166, 1081 Burrard Street
City Vancouver
State/province BC
ZIP/Postal code V6Z 1Y6
Country Canada
 
Platforms (1)
GPL6244 [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version]
Samples (18)
GSM843272 Subject 004 PAX.NGR (reanalysis), biological rep1
GSM843273 Subject 004 PAX.NGR (reanalysis), biological rep2
GSM843274 Subject 005 PAX.NGR (reanalysis), biological rep1
This SubSeries is part of SuperSeries:
GSE34172 Expression data from peripheral blood - blood draws at Pre and Post time points of Allergen inhalation challenge
Relations
BioProject PRJNA156471

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
GSE34160_RAW.tar 71.6 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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