SNP Report

Basic Info

Name	rs2252865 dbSNP Ensembl
Location	chr1:8362616 - 8362616(1)
Variant Alleles	T/C
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.201877
Functional Annotation	downstream_gene_variant; intron_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000460659, ENST00000464367, ENST00000465125, ENST00000488215, ENST00000492766); intron_variant(ENST00000337907, ENST00000377464, ENST00000400907, ENST00000400908, ENST00000476556, ENST00000505225)
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	T/C		Conditional FDR; SCZ loci given BD: FDR=0.03 for SCZ and BD,...... Conditional FDR; SCZ loci given BD: FDR=0.03 for SCZ and BD, \|\|Conditional FDR; BD loci given SCZ: P-value=0.000219, FDR=0.44657, FDR=0.01306 for BD and SCZ\|\|Conjunction FDR; pleiotropic loci in SCZ and BD: FDR=0.03 for BD and SZ, Z-score=3.696 for BD More...	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<0.05. This SNP is with conditional FDR<0.05 in schizophrenia given association with bipolar disorder after 'pruning'. This SNP is with conjunction FDR<0.05 with schizophrenia and bipolar disorder considered jointly. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
RERE	arginine-glutamic acid dipeptide (RE) repeats	1p36.23	Mapped by Literature SNP

SNPs in LD with rs2252865 (count: 0) View in gBrowse (chr1:8362616..8362616 )

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=0.000476, FDR=0.377, FDR=0.03 for SCZ and BD\|\|Conditional FDR; BD loci given SCZ: FDR=0.01306 for BD and SCZ\|\|Conjunction FDR; pleiotropic loci in SCZ and BD: FDR=0.03 for BD and SZ, Z-score=3.494 for SZ	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<0.05. This SNP is with conditional FDR<0.05 in schizophrenia given association with bipolar disorder after 'pruning'. This SNP is with conjunction FDR<0.05 with schizophrenia and bipolar disorder considered jointly.	Positive

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