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Schizophr Res. 2010 Sep;122(1-3):38-42. doi: 10.1016/j.schres.2010.07.001. Epub 2010 Jul 24.

Common variants conferring risk of schizophrenia: a pathway analysis of GWAS data.

Author information

1
Department of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN 37232, USA.

Abstract

Unlike the typical analysis of single markers in genome-wide association studies (GWAS), we incorporated Gene Set Enrichment Analysis (GSEA) and hypergeometric test and combined them using Fisher's combined method to perform pathway-based analysis in order to detect genes' combined effects on mediating schizophrenia. A few pathways were consistently found to be top ranked and likely associated with schizophrenia by these methods; they are related to metabolism of glutamate, the process of apoptosis, inflammation, and immune system (e.g., glutamate metabolism pathway, TGF-beta signaling pathway, and TNFR1 pathway). The genes involved in these pathways had not been detected by single marker analysis, suggesting this approach may complement the original analysis of GWAS dataset.

PMID:
20659789
PMCID:
PMC2933424
DOI:
10.1016/j.schres.2010.07.001
[Indexed for MEDLINE]
Free PMC Article

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