SNP Report

Basic Info

Name	rs4663627 dbSNP Ensembl
Location	chr2:235887904 - 235887904(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.40615
Functional Annotation	intron_variant; NMD_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000304032, ENST00000336665, ENST00000409538, ENST00000428334, ENST00000448025, ENST00000614409, ENST00000635100); NMD_transcript_variant(ENST00000635100)
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; SCZ loci given BD: FDR=0.033 for SCZ and BD Conditional FDR; SCZ loci given BD: FDR=0.033 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<0.20. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
AGAP1	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	2q37	Mapped by Literature SNP

SNPs in LD with rs4663627 (count: 0) View in gBrowse (chr2:235887904..235887904 )

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Andreassen OA, 2013	Conditional FDR; SCZ loci given BD: P-value=0.000131, FDR=0.203, FDR=0.033 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<0.20.	Positive

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