BDgene

SNP Report

Basic Info
Name rs3809646 dbSNP Ensembl
Location chr16:89720447 - 89720447(1)
Variant Alleles C/T
Ancestral Allele T
Minor Allele C
Minor Allele Frequence 0.170527
Functional Annotation 5_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant; upstream_gene_variant.
Consequence to Transcript 5_prime_UTR_variant(ENST00000562530); downstream_gene_variant(ENST00000562298, ENST00000562866); intron_variant(ENST00000389386, ENST00000563798); NMD_transcript_variant(ENST00000562530, ENST00000563798); upstream_gene_variant(ENST00000289816, ENST00000443381, ENST00000561536, ENST00000561976, ENST00000563541, ENST00000563983, ENST00000568064, ENST00000568295, ENST00000569426)
No. of Studies 1 (Positive: 1; Negative: 0; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? NO

SNP related studies (count: 1)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Andreassen OA, 2013 Conditional FDR; BD loci given SCZ: P-value=0.000576, FDR=0....... Conditional FDR; BD loci given SCZ: P-value=0.000576, FDR=0.60769, FDR=0.03171 for BD and SCZ More... This SNP is with conditional FDR<0.05 in schizophrenia given...... This SNP is with conditional FDR<0.05 in schizophrenia given association with bipolar disorder after 'pruning'. More... Positive

SNP related genes (count: 3)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
VPS9D1-AS1 VPS9D1 antisense RNA 1 16q24.3 Mapped by Literature SNP
ZNF276 zinc finger protein 276 16q24.3 Mapped by Literature SNP
VPS9D1 VPS9 domain containing 1 16q24.3 Mapped by Literature SNP

SNPs in LD with rs3809646 (count: 0) View in gBrowse (chr16:89720447..89720447 )

Overlap with SZ from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Andreassen OA, 2013 Conditional FDR; BD loci given SCZ: FDR=0.03171 for BD and SCZ This SNP is with conditional FDR<0.05 in schizophrenia given association with bipolar disorder after 'pruning'. Positive

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