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Specifications


Application: Gene expression microarray analysis
Number of samples: 173
Release date: Jul 8 2011
Last update date: Jul 10 2014
Access: Public
Diseases: Lupus Vasculitis, Central Nervous System
Dataset link Tissue-specific genetic regulation of splicing and expression (exon-level)

Experimental Protocol


We evaluated 93 autopsy-collected cortical brain tissue samples with no defined neuropsychiatric condition and 80 peripheral blood mononucleated cell samples collected from living healthy donors. Affymetrix Human ST 1.0 exon arrays were used to assess exon and transcript expression levels for all samples used in the study. Replicate analyses were not performed. Exon array sample preparation from total RNA was conducted based on standard Affymetrix protocols. Data were normalized separately within PBMC and brain sets Affymetrix PLIER protocol with a sketch-quantile normalization procedure (Affymetrix Expression Console). Normalized files include brain core transcripts (NABRAINSETCOMBplier-gene-core.summary), brain all transcripts (NABRAINSETCOMBplier-gene-full.summary), brain core exons (NABRAINSETCOMBplier-exon-core.summary), brain all exons (NABRAINSETCOMBplier-exon-all.summary), PBMC core transcripts (NAPBMCfullsetplier-gene-core.summary), PBMC all transcripts (NAPBMCfullsetplier-gene-full.summary), PBMC core exons (NAPBMCfullsetplier-exon-core.summary), PBMC all exons (NAPBMCfullsetplier-exon-all.summary). all, full and core definitions are provided by Affymetrix.

Repositories


GEO

GSE30422

ArrayExpress

E-GEOD-30422

BioProject

PRJNA154837

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Contact


Erin Heinzen
Erin L. Heinzen

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