BDgene

SNP Report

Basic Info
Name rs4356203 dbSNP Ensembl
Location chr11:17138601 - 17138601(1)
Variant Alleles A/G
Ancestral Allele A
Minor Allele G
Minor Allele Frequence 0.22524
Functional Annotation downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript downstream_gene_variant(ENST00000533645); intron_variant(ENST00000265970, ENST00000531428); non_coding_transcript_variant(ENST00000531428); upstream_gene_variant(ENST00000477436)
No. of Studies 2 (Positive: 1; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? NO

SNP related studies (count: 2)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Andreassen OA, 2013 Conditional FDR; SCZ loci given BD: FDR=0.029 for SCZ and BD Conditional FDR; SCZ loci given BD: FDR=0.029 for SCZ and BD To estimate the number of independent loci, we 'pruned' the ...... To estimate the number of independent loci, we 'pruned' the associated SNPs (removed SNPs with linkage disequilibrium (LD)>0.2), and identified a total of 58 independent loci with a significance threshold of conditional FDR<0.32. More... Positive
Ruderfer, D. M., 2013 P-value=7.36E-05 for BP, P-value=6.46E-09 for BP+SZ, Het P-v...... P-value=7.36E-05 for BP, P-value=6.46E-09 for BP+SZ, Het P-value=0.70 More... The SNP is novel. Most significant SNP in six genome-wide si...... The SNP is novel. Most significant SNP in six genome-wide significant regions. More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
PIK3C2A phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha 11p15.5-p14 1(0/1/0)

SNPs in LD with rs4356203 (count: 0) View in gBrowse (chr11:17138601..17138601 )

Overlap with SZ from cross-disorder studies (count: 2)
Reference Statistical Result Description Result Category
Ruderfer, D. M., 2013 P-value=2.14E-05 for BP, P-value=5.53E-13 for BP+SZ, Het P-value=0.85 Most significant SNP in six genome-wide significant regions. Negative
Andreassen OA, 2013 Conditional FDR; SCZ loci given BD: P-value=0.0000548, FDR=0.128, FDR=0.029 for SCZ and BD To estimate the number of independent loci, we 'pruned' the associated SNPs (removed SNPs with linkage disequilibrium (LD)>0.2), and identified a total of 58 independent loci with a significance threshold of conditional FDR<0.32. Positive

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