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Expression data from peripheral blood - blood draws at Pre and Post time points of Methacholine (MCh) inhalation challenge

ABSTRACT: Evaluate the effect of methacholine-induced bronchoconstriction on the peripheral whole-blood transcriptome, post-challenge compared to pre-challenge. Blood was collected immediately prior to, and two hours after challenge.

ORGANISM(S): Homo sapiens

PROVIDER: GSE32198 | GEO | 2011/09/18

SECONDARY ACCESSION(S): PRJNA147381

REPOSITORIES: GEO

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Expression data from peripheral blood - blood draws at Pre and Post time points of Methacholine (MCh) inhalation challenge

Project description:Evaluate the effect of methacholine-induced bronchoconstriction on the peripheral whole-blood transcriptome, post-challenge compared to pre-challenge. Blood was collected immediately prior to, and two hours after challenge. 28 total blood samples (14 Pre- and 14 Post-challenge) were analyzed. Robust regression in the Linear Models for MicroArrays (LIMMA) was used to compaire gene expression between Pre and Post time points. No pre-filtering of probe sets was performed prior to statistical analyses. In addtion, and FDR of 10% was used to deteremine signifance of genes.

2011-09-17 | E-GEOD-32198 | biostudies-arrayexpress

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Project description:To determine differential gene expression in peripheral blood of asthmatic individuals undergoing allergen inhalation challenge, post-challenge compared to pre-challenge 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%.

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Expression data from peripheral blood - blood draws at Pre and Post time points of Allergen inhalation challenge

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Expression data from peripheral blood - blood draws at Pre and Post time points of Allergen inhalation challenge (PAX.NGR and EDTA)

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