BDgene

SNP Report

Basic Info
Name rs2400546 dbSNP Ensembl
Location chr12:79670586 - 79670586(1)
Variant Alleles A/T
Ancestral Allele T
Minor Allele T
Minor Allele Frequence 0.299521
Functional Annotation intron_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000328827, ENST00000547571, ENST00000550006, ENST00000551712); non_coding_transcript_variant(ENST00000547571, ENST00000550006)
No. of Studies 1 (Positive: 0; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? YES

SNP related studies (count: 1)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Kishi, T., 2008 (a) A > T Hardy-Weinberg equilibrium P value=0.403, genotypic P value=...... Hardy-Weinberg equilibrium P value=0.403, genotypic P value=0.953, allelic P value=0.717 for bipolor disorder compared with controls. More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
PAWR PRKC, apoptosis, WT1, regulator 12q21.2 1(0/1/0)

SNPs in LD with rs2400546 (count: 65) View in gBrowse (chr12:79481238..79714636 )
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: 65)


Overlap with SZ from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Kishi, T., 2008 (a) Hardy-Weinberg equilibrium P value=0.106, genotypic P value=0.786, allelic P value=0.474 for schizophrenia compared with controls. No association was detected with schizophrenia or MDD in allele/genotype-wise analyses. Negative

Overlap with MDD from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Kishi, T., 2008 (a) Hardy-Weinberg equilibrium P value=0.408, genotypic P value=0.453, allelic P value=0.656 for MDD compared with controls. No association was detected with schizophrenia or MDD in allele/genotype-wise analyses. Negative