BDgene

SNP Report

Basic Info
Name rs11178998 dbSNP Ensembl
Location chr12:71938935 - 71938935(1)
Variant Alleles A/G
Ancestral Allele A
Minor Allele G
Minor Allele Frequence 0.0858626
Functional Annotation 5_prime_UTR_variant; upstream_gene_variant.
Consequence to Transcript 5_prime_UTR_variant(ENST00000333850); upstream_gene_variant(ENST00000546576)
No. of Studies 4 (Positive: 2; Negative: 2; Trend: 0)
Source Literature
Overlap with SZ? NO
Overlap with MDD? NO

SNP related studies (count: 4)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Grigoroiu-Serbanescu, M.,2008 A/G Cochrane-Armitage trend test P value=0.548 Cochrane-Armitage trend test P value=0.548 Negative
Lin, Y. M., 2007 A/G chi-square P-value = 0.40 chi-square P-value = 0.40 this SNP was not associated with the disease this SNP was not associated with the disease Negative
Cichon, S., 2008 A/G G Cochrane-Armitage trend test P-value = 0.0051 , OR (95% CI)=...... Cochrane-Armitage trend test P-value = 0.0051 , OR (95% CI)=1.5 (1.1-1.9) in the German BPAD sample. Cochrane-Armitage trend test P-value = 0.0852 , OR (95% CI)=1.6 (0.94-2.6) in the Russian BPAD sample. Cochrane-Armitage trend test P-value = 0.00098 , OR (95% CI)=1.5 (1.2-1.9) in Combined German/Russian sample. More... In the German sample, the minor alleles of SNPs rs11178997, ...... In the German sample, the minor alleles of SNPs rs11178997, rs11178998 and rs7954758 were significantly over-represented in BPAD patients when compared with controls. In the Russian replication sample, the three SNPs in the 5' region showed a non-significant trend. More... Positive
Gao, J., 2016 Fixed effect model: P-value=0.0047, OR=1.3259, 95%CI=1.0905...... Fixed effect model: P-value=0.0047, OR=1.3259, 95%CI=1.0905-1.6123; Random effects model: P-value=0.0258, OR=1.3026, 95%CI=1.0325-1.6434 More... Without statistically significant study heterogeneity, the f...... Without statistically significant study heterogeneity, the fixed effects summar OR for rs11178998 (1184 cases and 1585 controls) was 1.33. Even with the conservative random effective model, the summary OR was 1.30, which indicated an association of rs11178998 with BD. It appeared that rs11178998 and rs4760820 had strong epidemiological credibility, while rs7954758 had relatively weak association due to significant between-study heterogeneity and failure to reach statistical significance in the random effective model. More... Positive

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
TPH2 tryptophan hydroxylase 2 12q15 13(10/3/0)

SNPs in LD with rs11178998 (count: 0) View in gBrowse (chr12:71938935..71938935 )

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with MDD from cross-disorder studies (count: 0)