Study Report

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Basic Info

Reference	Chen, X., 2015 PMID: 26192912
Citation	Chen, X., et al. (2015). "A novel relationship for schizophrenia, bipolar and major depressive disorder Part 7: A hint from chromosome 7 high density association screen." Behav Brain Res 293: 241-251.
Disease Type	Bipolar Disorder & Schizophrenia & MDD
Study Design	case-control
Study Type	Genome-wide association study
Sample Size	119 SCZ, 253 BPD (type-I), 177 MDD, 1000 controls
SNP/Region/Marker Size	47,144 SNPs
Predominant Ethnicity	Han Chinese
Population	Shangdong province of China
Gender	male/female ratio was 1.05(61/58) for SCZ, 1.26:1(141/112) for BD, 0.71:1 (49/68) for MDD, 1.32:1 (569/431) for controls
Age Group	adults : mean age (SD) = 33.98 (11.99) years for SCZ patients; mean age (SD) = 34.05 (14.74) years for BD patients; mean age (SD) = 44.77 (16.96) years for MDD patients,mean age (SD) = 23.08 (5.67) years for controls

Detail Info

Sample Diagnosis	DSM-IV
Sample Status	All patients and controls are Han Chinese. The diagnoses were made according to DSM-IV criteria by at least two experienced psychiatrists, on the basis of empirical diagnostic interviews.
Replication Size	986 SCZ patients (the male/female ratio was 0.99:1 (492/494); mean age(SD)=33.80(11.98) years)
Technique	genotyped by Affymetrix Genome-Wide Human SNP array 6.0
Statistical Method	Chi-square test
Result Summary	Associated SNP loci were comprehensively revealed and outstanding susceptibility genes were identified including CNTNAP2. a neurexin family gene. Unexpectedly, flanking genes for up to 94.74 % of of the associated SNPs were replicated (P <= 9.9 E-8) in an enlarged cohort of 986 SCZ patients. Considering other convergent evidence, our results further implicate that BPD and MDD are subtypes of SCZ.

SNPs reported by this study for BD (count: 32)

SNP	Related Gene(s)	Allele Change	Statistical Values	Author Comments	Result Category
rs3823786	MAGI2	A/G	P-value=6.44E-21,Â OR=0.36, 95%CI=0.29-0.45	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs4050289		A/C	P-value=1.54E-39,Â OR=0.26, 95%CI=0.21-0.32	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs3735361	GLI3	C/T	P-value=1.87E-23,Â OR=0.37, 95%CI=0.30-0.45	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs6948482	ISPD	C/T	P-value=7.25E-23,Â OR=0.32, 95%CI=0.26-0.41	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs7788333		A/G	P-value=9.15E-20,Â OR=2.51, 95%CI=2.05-3.07	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs1029888	CUL1	C/T	P-value=8E-29,Â OR=3.07, 95%CI=2.51-3.75	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs424605		A/G	P-value=2.39E-26,Â OR=0.34, 95%CI=0.28-0.42	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs7797944	PRKAG2	C/T	P-value=9.89E-28,Â OR=0.32, 95%CI=0.26-0.26	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs12539777	SLC26A5	A/G	P-value=9.25E-24,Â OR=2.74, 95%CI=2.24-3.34	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs10257353	BET1	G/T	P-value=2.46E-25,Â OR=0.35, 95%CI=0.28-0.42	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17152742		C/T	P-value=5.7E-34,Â OR=0.27, 95%CI=0.21-0.33	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs12535264	ATXN7L1 EFCAB10	C/T	P-value=1.6E-20,Â OR=0.37, 95%CI=0.30-0.46	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs735150		C/T	P-value=8.79E-28,Â OR=0.32, 95%CI=0.25-0.39	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs1008707	SLC26A3	A/T	P-value=1.46E-24,Â OR=0.34, 95%CI=0.28-0.42	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17438627		C/T	P-value=2.79E-28,Â OR=0.31, 95%CI=0.25-0.39	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs6971229		C/G	P-value=1.01E-20,Â OR=0.36, 95%CI=0.29-0.45	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17142849		G/T	P-value=1.92E-22,Â OR=0.31, 95%CI=0.24-0.39	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17153639		C/T	P-value=1.88E-42,Â OR=7.56, 95%CI=5.45-10.50	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17156517	JAZF1-AS1	C/T	P-value=2.33E-21,Â OR=0.39, 95%CI=0.32-0.47	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs245962	CHN2	A/G	P-value=1.47E-21,Â OR=0.36, 95%CI=0.29-0.44	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs2237370	POU6F2	A/T	P-value=1.1E-20,Â OR=2.64, 95%CI=2.15-3.25	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs1523709		A/G	P-value=5.48E-37,Â OR=4.03, 95%CI=3.22-5.04	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs1404682	ZNF679	A/C	P-value=5E-22,Â OR=0.36, 95%CI=0.29-0.45	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs4072879	VKORC1L1	C/T	P-value=5.87E-20,Â OR=0.40, 95%CI=0.32-0.48	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs6970032		A/T	P-value=1.75E-23,Â OR=0.28, 95%CI=0.22-0.37	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs2037694		C/G	P-value=5.28E-20,Â OR=2.50, 95%CI=2.05-3.05	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs7795227		A/C	P-value=2.33E-22,Â OR=0.38, 95%CI=0.31-0.46	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs17132944		C/T	P-value=2.33E-21,Â OR=0.39, 95%CI=0.32-0.47	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs10234438	RAC1	C/T	P-value=4.03E-26,Â OR=2.91, 95%CI=2.38-3.56	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs13245945	RPA3 RPA3-AS1	A/G	P-value=4E-20,Â OR=0.38, 95%CI=0.31-0.47	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs1860876		C/T	P-value=2.56E-24,Â OR=2.86, 95%CI=2.32-3.51	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive
rs10486359		A/C	P-value=8.83E-23,Â OR=0.36, 95%CI=0.29-0.44	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive

Genes reported by this study for BD (count: 32)

Gene	Statistical Values/Author Comments	Result Category
SNX13	The allele-biased expression of SNX13 in differentiating human neurons was discovered in neuropsychi...... The allele-biased expression of SNX13 in differentiating human neurons was discovered in neuropsychiatric disorders. More...	Positive
HDAC9	HDAC9 has been implicated in BPD and mental competency HDAC9 has been implicated in BPD and mental competency	Positive
ITGB8	ITGB8 has been implicated in SCZ, and Alzheimer disease. ITGB8 has been implicated in SCZ, and Alzheimer disease.	Positive
CHN2	CHN2 has been implicated in neuropsychiatric disorders. CHN2 has been implicated in neuropsychiatric disorders.	Positive
POU6F2	POU6F2 has been associated with autism and alcoholism. POU6F2 has been associated with autism and alcoholism.	Positive
CDK13	CDK13 has been implicated in autism spectrum disorders. CDK13 has been implicated in autism spectrum disorders.	Positive
VKORC1L1	VKORC1L1 has been implicated in Huntingtonâ€™s disease. VKORC1L1 has been implicated in Huntingtonâ€™s disease.	Positive
BET1	BET1 has been implicated in intelligence. BET1 has been implicated in intelligence.	Positive
ATXN7L1	ATXN7L1 has been implicated in autism. ATXN7L1 has been implicated in autism.	Positive
SYPL1	SYPL1 has been implicated in MDD. SYPL1 has been implicated in MDD.	Positive
NAMPT	NAMPT has been implicated in BPD and Lithium response. NAMPT has been implicated in BPD and Lithium response.	Positive
ZNF277	ZNF277 has been related to mental competency. ZNF277 has been related to mental competency.	Positive
IFRD1	IFRD1 has been related to autism. IFRD1 has been related to autism.	Positive
NAA38	NAA38 has been implicated in Alzheimerâ€™s disease and neurodegenerative diseases. NAA38 has been implicated in Alzheimerâ€™s disease and neurodegenerative diseases.	Positive
KCND2	KCND2 has been implicated in BPD and autism spectrum disorder. KCND2 has been implicated in BPD and autism spectrum disorder.	Positive
FAM3C	FAM3C has been implicated in Huntington disease, autism spectrum disorder and intellectual disabilit...... FAM3C has been implicated in Huntington disease, autism spectrum disorder and intellectual disability. More...	Positive
PTPRZ1	PTPRZ1 has been implicated in BPD, SCZ and alcoholism. PTPRZ1 has been implicated in BPD, SCZ and alcoholism.	Positive
TRIM24	TRIM24 has been implicated in SCZ. TRIM24 has been implicated in SCZ.	Positive
CUL1	CUL1 has been implicated in Alzheimerâ€™s disease. CUL1 has been implicated in Alzheimerâ€™s disease.	Positive
PRKAG2	PRKAG2 has been implicated in BPD [56], MDD [57], ADHD and autism. PRKAG2 has been implicated in BPD [56], MDD [57], ADHD and autism.	Positive
MAGI2	MAGI2 has been reported to be related to SCZ, BPD, depressive syndrome, alcohol dependence, antidepr...... MAGI2 has been reported to be related to SCZ, BPD, depressive syndrome, alcohol dependence, antidepressive agents and hippocampal atrophy. More...	Positive
DGKB	DGKB has been implicated in brain diseases and murine model of Alzheimerâ€™s disease. DGKB has been implicated in brain diseases and murine model of Alzheimerâ€™s disease.	Positive
AGMO(alsoknownasTMEM195)	AGMO has been implicated in autism. AGMO has been implicated in autism.	Positive
MEOX2	MEOX2 microRNA was down-regulated in depressed suicide individuals. MEOX2 microRNA was down-regulated in depressed suicide individuals.	Positive
GLI3	GLI3 was implicated in neurological and psychiatric disease GLI3 was implicated in neurological and psychiatric disease	Positive
COBL	COBL has been implicated in SCZ and autism spectrum disorders. COBL has been implicated in SCZ and autism spectrum disorders.	Positive
UPP1	UPP1 has been implicated in autism spectrum disorder. UPP1 has been implicated in autism spectrum disorder.	Positive
ABCA13	ABCA13 has been implicated in SCZ, BPD, depression and autism. ABCA13 has been implicated in SCZ, BPD, depression and autism.	Positive
RAC1	RAC1 has been implicated in BPD by interacting with ANK3. RAC1 has been implicated in BPD by interacting with ANK3.	Positive
SDK1	SDK1 has been implicated in anxiety disorders, mood disorders and SCZ. SDK1 has been implicated in anxiety disorders, mood disorders and SCZ.	Positive
AHR	AHR has been related to antipsychotic drugs [43] and Alzheimerâ€™s disease. AHR has been related to antipsychotic drugs [43] and Alzheimerâ€™s disease.	Positive
RPA3	RPA3 has been implicated in SCZ and BPD RPA3 has been implicated in SCZ and BPD	Positive