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Series GSE54564 Query DataSets for GSE54564
Status Public on May 16, 2014
Title Expression data from human brain amygdala - including control samples and samples with major depression disorders (42 samples MD3_AMY)
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Major depressive disorder is a heterogeneous illness with a mostly uncharacterized pathology. Large scale gene expression (transcriptome) analysis and genome-wide association studies (GWAS) for single nucleotide polymorphisms have generated a considerable amount of gene- and disease-related information, but heterogeneity and various sources of noise have limited the discovery of disease mechanisms. As systematic dataset integration is becoming essential, we developed methods and performed meta-clustering of gene coexpression links in 11 transcriptome studies from postmortem brains of human subjects with major depressive disorder (MDD) and non-psychiatric control subjects. We next sought enrichment in the top 50 meta-analyzed coexpression modules for genes otherwise identified by GWAS for various sets of disorders. One coexpression module of 88 genes was consistently and significantly associated with GWAS for MDD, other neuropsychiatric disorders and brain functions, and for medical illnesses with elevated clinical risk of depression, but not for other diseases (See publication for details).
 
Overall design 42 total samples in 21 pairs were analyzed in postmortem tissue from the amygdala.
 
Contributor(s) Sibille E
Citation(s) 24608543
Submission date Jan 30, 2014
Last update date Aug 16, 2018
Contact name Etienne Sibille
E-mail(s) etienne.sibille@camh.ca
Phone 412-624-0804
Organization name University of Pittsburgh
Department Psychiatry
Street address 450 Technology Drive, Suite 231
City Pittsburgh
State/province PA
ZIP/Postal code 15219
Country USA
 
Platforms (1)
GPL6947 Illumina HumanHT-12 V3.0 expression beadchip
Samples (42)
GSM1318948 MDD matched sample pair amygdala MD3_AMY #14
GSM1318949 MDD matched sample pair amygdala MD3_AMY #15
GSM1318950 MDD matched sample pair amygdala MD3_AMY #16
Relations
BioProject PRJNA237166

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
GSE54564_RAW.tar 6.2 Mb (http)(custom) TAR
GSE54564_non-normalized.txt.gz 2.9 Mb (ftp)(http) TXT
Processed data included within Sample table
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