BDgene

SNP Report

Basic Info
Name rs1800532 dbSNP Ensembl
Location chr11:18026269 - 18026269(1)
Variant Alleles G/T
Ancestral Allele G
Minor Allele T
Minor Allele Frequence 0.321086
Functional Annotation downstream_gene_variant; intron_variant; NMD_transcript_variant; upstream_gene_variant.
Consequence to Transcript downstream_gene_variant(ENST00000528338); intron_variant(ENST00000250018, ENST00000417164); NMD_transcript_variant(ENST00000417164); upstream_gene_variant(ENST00000525406, ENST00000525523)
No. of Studies 3 (Positive: 1; Negative: 2; Trend: 0)
Source Literature
Overlap with SZ? NO
Overlap with MDD? YES

SNP related studies (count: 3)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Chen, D.,2011 A/C Meta analysis: In the homozygote model for Asian populations...... Meta analysis: In the homozygote model for Asian populations (A/A vs. C/C: OR, 1.51; 95% CI, 1.05-2.18; nominal P(Z)=0.027, by fixed effects; P(Q)=0.426, I2=0.0%), and in the homozygote and recessive models for Caucasian populations (A/A vs. C/C: OR, 1.63; 95%CI, 1.11-2.40; nominal P(Z)=0.012, by random effects; P(Q)=0.046, I2=58.8% and A/A vs. A/C+C/C: OR, 1.42; 95%CI, 1.16-1.73; nominal P(Z)=0.001, by fixed effects; P=0. 202 for heterogeneity, I2=32.9%, respectively) More... Nominally significant association was observed in the homozy...... Nominally significant association was observed in the homozygote model for Asian populations. More... Positive
Lai, T. J.,2005 A/C chi-squared test: genotype, X2=1.726, P-value = 0...... chi-squared test: genotype, X2=1.726, P-value = 0.422; allele, X2=1.795, P-value = 0.18 More... No significant association was observed. No significant association was observed. Negative
Seifuddin, F.,2012 G/T Meta-analysis OR=1.24, 95% CI=1.09-1.41 , P-value = 0.001 Meta-analysis OR=1.24, 95% CI=1.09-1.41 , P-value = 0.001 No significance was found after correction for multiple test...... No significance was found after correction for multiple testing. More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
TPH1 tryptophan hydroxylase 1 11p15.3-p14 14(5/9/0)

SNPs in LD with rs1800532 (count: 38) View in gBrowse (chr11:17921284..18051595 )
The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r2<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 38)


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

Overlap with MDD from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Chen, D.,2011 Meta analysis:On the basis of the random effect model, P-value > 0.05 in any genetic models either in Caucasians or in Asians. On the basis of the random effect model, no significant association between TPH1 A218C polymorphism and MDD risk was found in any genetic models either in Caucasians or in Asians. Negative

Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback Acknowledgements
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Last update: March 31, 2016