Conference Paper: Genome-wide association study of schizophrenia in a Chinese population

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Title	Genome-wide association study of schizophrenia in a Chinese population
Authors	So, HC Li, M Chen, RY Cheung, EF Chen, EY Cherny, SS Li, T Sham, PC
Issue Date	2010
Publisher	Cambridge University Press. The Journal's web site is located at http://journals.cambridge.org/action/displayJournal?jid=PNP
Citation	27th CINP Congress Meeting 2010, Hong Kong, China, 6-10 June 2010. [How to Cite?] DOI: http://dx.doi.org/10.1017/S1461145710000635
Abstract	Objective : Schizophrenia is a severe psychiatric disease with a lifetime risk of approximately 1%. Although the heritability of schizophrenia is high, few susceptibility genes have been identified to date. Genome-wide association study (GWAS) has proved to be a powerful tool in dissecting the genetic basis of complex diseases. To date, most GWAS on schizophrenia were conducted on Caucasians. However, allele frequencies, linkage disequilibrium patterns and genetic or environmental backgrounds may differ among populations, rendering some variants more readily discovered in one population than the other. Methods : We have performed a GWAS on schizophrenia in a Chinese Han population. Samples were genotyped using the Illumina Human610-Quad BeadChip. After quality control procedures, the dataset consisted of 473931 SNPs from 481 cases and 2034 controls. Association between each SNP and disease status was tested by logistic regression under an additive model. Results : In total 76 SNPs achieved nominal p-values less than 1E-4. However, no SNPs achieved genome-wide significance (5E-8). We also extracted the association results of SNPs lying within 33 candidate genes that were implicated in previous GWAS or listed in the SZgene database. The QQ plot however shows no evidence of enrichment of significant signals. The most significant SNP in the candidate gene analysis belongs to the PLXNA2 gene (p=5.93E-4). In addition, we extracted results from SNPs within linkage hotspots suggested by a recent meta-analysis and SNPs within the MHC region. Both QQ plots showed positive deviations from the predicted line corresponding to the complete null hypothesis, providing evidence that some associated SNPs in these regions represent true positives. Conclusion: We have not been able to detect any SNPs passing genome-wide significance. Common variants with large effect sizes are unlikely to exist for schizophrenia. Larger sample sizes are required to detect susceptibility variants for the disease.
Description	International Journal of Neuropsychopharmacology, v. 13 n. Supplement S1, p. 171-171, Abstract No. P-12.014
ISSN	1461-1457 2011 Impact Factor: 4.578 2011 SCImago Journal Rankings: 0.259
DOI	http://dx.doi.org/10.1017/S1461145710000635

DC Field	Value
dc.contributor.author	So, HC
dc.contributor.author	Li, M
dc.contributor.author	Chen, RY
dc.contributor.author	Cheung, EF
dc.contributor.author	Chen, EY
dc.contributor.author	Cherny, SS
dc.contributor.author	Li, T
dc.contributor.author	Sham, PC
dc.date.accessioned	2011-07-27T02:01:43Z
dc.date.available	2011-07-27T02:01:43Z
dc.date.issued	2010
dc.description.abstract	Objective : Schizophrenia is a severe psychiatric disease with a lifetime risk of approximately 1%. Although the heritability of schizophrenia is high, few susceptibility genes have been identified to date. Genome-wide association study (GWAS) has proved to be a powerful tool in dissecting the genetic basis of complex diseases. To date, most GWAS on schizophrenia were conducted on Caucasians. However, allele frequencies, linkage disequilibrium patterns and genetic or environmental backgrounds may differ among populations, rendering some variants more readily discovered in one population than the other. Methods : We have performed a GWAS on schizophrenia in a Chinese Han population. Samples were genotyped using the Illumina Human610-Quad BeadChip. After quality control procedures, the dataset consisted of 473931 SNPs from 481 cases and 2034 controls. Association between each SNP and disease status was tested by logistic regression under an additive model. Results : In total 76 SNPs achieved nominal p-values less than 1E-4. However, no SNPs achieved genome-wide significance (5E-8). We also extracted the association results of SNPs lying within 33 candidate genes that were implicated in previous GWAS or listed in the SZgene database. The QQ plot however shows no evidence of enrichment of significant signals. The most significant SNP in the candidate gene analysis belongs to the PLXNA2 gene (p=5.93E-4). In addition, we extracted results from SNPs within linkage hotspots suggested by a recent meta-analysis and SNPs within the MHC region. Both QQ plots showed positive deviations from the predicted line corresponding to the complete null hypothesis, providing evidence that some associated SNPs in these regions represent true positives. Conclusion: We have not been able to detect any SNPs passing genome-wide significance. Common variants with large effect sizes are unlikely to exist for schizophrenia. Larger sample sizes are required to detect susceptibility variants for the disease.
dc.description.nature	link_to_subscribed_fulltext
dc.description	International Journal of Neuropsychopharmacology, v. 13 n. Supplement S1, p. 171-171, Abstract No. P-12.014
dc.identifier.citation	27th CINP Congress Meeting 2010, Hong Kong, China, 6-10 June 2010. [How to Cite?] DOI: http://dx.doi.org/10.1017/S1461145710000635
dc.identifier.doi	http://dx.doi.org/10.1017/S1461145710000635
dc.identifier.epage	171
dc.identifier.hkuros	188447
dc.identifier.issn	1461-1457 2011 Impact Factor: 4.578 2011 SCImago Journal Rankings: 0.259
dc.identifier.issue	Supplement S1
dc.identifier.openurl
dc.identifier.spage	171
dc.identifier.uri	http://hdl.handle.net/10722/136026
dc.identifier.volume	13
dc.language	eng
dc.publisher	Cambridge University Press. The Journal's web site is located at http://journals.cambridge.org/action/displayJournal?jid=PNP
dc.relation.ispartof	International Journal of Neuropsychopharmacology
dc.rights	International Journal of Neuropsychopharmacology. Copyright © Cambridge University Press.
dc.title	Genome-wide association study of schizophrenia in a Chinese population
dc.type	Conference_Paper

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Genome-wide association study (GWAS) has proved to be a powerful tool in dissecting the genetic basis of complex diseases. To date, most GWAS on schizophrenia were conducted on Caucasians. However,
allele frequencies, linkage disequilibrium patterns and genetic or environmental backgrounds may differ among populations, rendering some variants more readily discovered in one population than the
other.
Methods : We have performed a GWAS on schizophrenia in a Chinese Han population. Samples were genotyped using the Illumina Human610-Quad BeadChip. After quality control procedures, the dataset consisted of 473931 SNPs from 481 cases and 2034 controls. Association between each SNP and disease status was tested by logistic regression under an additive model.
Results : In total 76 SNPs achieved nominal p-values less than 1E-4. However, no SNPs achieved genome-wide significance (5E-8). We also extracted the association results of SNPs lying within 33 candidate genes that were implicated in previous GWAS or listed in the SZgene database. The QQ plot however shows no evidence of enrichment of significant signals. The most significant SNP in the candidate gene analysis belongs to the PLXNA2 gene (p=5.93E-4). In addition, we extracted results from SNPs within linkage hotspots suggested by a recent meta-analysis and SNPs within the MHC region.
Both QQ plots showed positive deviations from the predicted line corresponding to the complete null hypothesis, providing evidence that some associated SNPs in these regions represent true positives.
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Conference Paper: Genome-wide association study of schizophrenia in a Chinese population

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