Transcriptome sequencing revealed significant alteration of cortical promoter usage and splicing in schizophrenia.

PloS One
Jing Qin WuM J Cairns

Abstract

While hybridization based analysis of the cortical transcriptome has provided important insight into the neuropathology of schizophrenia, it represents a restricted view of disease-associated gene activity based on predetermined probes. By contrast, sequencing technology can provide un-biased analysis of transcription at nucleotide resolution. Here we use this approach to investigate schizophrenia-associated cortical gene expression. The data was generated from 76 bp reads of RNA-Seq, aligned to the reference genome and assembled into transcripts for quantification of exons, splice variants and alternative promoters in postmortem superior temporal gyrus (STG/BA22) from 9 male subjects with schizophrenia and 9 matched non-psychiatric controls. Differentially expressed genes were then subjected to further sequence and functional group analysis. The output, amounting to more than 38 Gb of sequence, revealed significant alteration of gene expression including many previously shown to be associated with schizophrenia. Gene ontology enrichment analysis followed by functional map construction identified three functional clusters highly relevant to schizophrenia including neurotransmission related functions, synaptic vesicle traffickin...Continue Reading

Associated Datasets

Mar 8, 2013·Xi Wang, Xi Wang

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Datasets Mentioned

BETA
E-MTAB-1030

Methods Mentioned

BETA
PCR
electrophoresis
RNA-Seq

Software Mentioned

Cufflinks suite
Bustard Pipeline
GoMiner
Enrichment Map
Bowtie
DAVID
Ensembl Genome Browser
EnrichmentMap
TopHat
Cytoscape

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