SNP Report

Basic Info

Name	rs10776799 dbSNP Ensembl
Location	chr1:115330426 - 115330426(1)
Variant Alleles	G/T
Ancestral Allele	G
Minor Allele	G
Minor Allele Frequence	0.3752
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000369512, ENST00000425449, LRG_260t1); non_coding_transcript_variant(ENST00000425449)
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
Sklar, P.,2011	G/T		Primary GWAS P-value(GC)=0.0000484, OR=1.15; replication P-v...... Primary GWAS P-value(GC)=0.0000484, OR=1.15; replication P-value(1-sided)=0.434, OR=1.01; Combined GWAS and replication P-value(GC)=0.00125, OR=1.08 More...	No significant association was observed. No significant association was observed.	Negative
Andreassen OA, 2013			Conditional FDR; BD loci given SCZ: P-value=0.00000968, FDR=...... Conditional FDR; BD loci given SCZ: P-value=0.00000968, FDR=0.17368, FDR=0.02579 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: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
NGF	nerve growth factor (beta polypeptide)	1p13.1	2(1/1/0)

SNPs in LD with rs10776799 (count: 3) View in gBrowse (chr1:115319633..115330426 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Functional Annotation	r²[population]
rs11102924	intron_variant; non_coding_transcript_variant	0.912[TSI]
rs10776798	intron_variant; non_coding_transcript_variant	0.858[TSI]
rs4839436	intron_variant; non_coding_transcript_variant	0.801[TSI]

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=0.02579 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)