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)