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.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 38-42 |
| Number of pages | 5 |
| Journal | Schizophrenia Research |
| Volume | 122 |
| Issue number | 1-3 |
| DOIs | |
| State | Published - Sep 1 2010 |
| Externally published | Yes |
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Keywords
- Candidate gene
- Gene set enrichment analysis
- GWAS
- Pathway
- Schizophrenia
ASJC Scopus subject areas
- Psychiatry and Mental health
- Biological Psychiatry
Cite this
Common variants conferring risk of schizophrenia : A pathway analysis of GWAS data. / Jia, Peilin; Wang, Lily; Meltzer, Herbert Y.; Zhao, Zhongming.
In: Schizophrenia Research, Vol. 122, No. 1-3, 01.09.2010, p. 38-42.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Common variants conferring risk of schizophrenia
T2 - A pathway analysis of GWAS data
AU - Jia, Peilin
AU - Wang, Lily
AU - Meltzer, Herbert Y.
AU - Zhao, Zhongming
PY - 2010/9/1
Y1 - 2010/9/1
N2 - 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.
AB - 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.
KW - Candidate gene
KW - Gene set enrichment analysis
KW - GWAS
KW - Pathway
KW - Schizophrenia
UR - http://www.scopus.com/inward/record.url?scp=77956192274&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=77956192274&partnerID=8YFLogxK
U2 - 10.1016/j.schres.2010.07.001
DO - 10.1016/j.schres.2010.07.001
M3 - Article
C2 - 20659789
AN - SCOPUS:77956192274
VL - 122
SP - 38
EP - 42
JO - Schizophrenia Research
JF - Schizophrenia Research
SN - 0920-9964
IS - 1-3
ER -