SNP Report

Basic Info

Name	rs1509963 dbSNP Ensembl
Location	chr10:62810651 - 62810651(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.186102
Functional Annotation	downstream_gene_variant; upstream_gene_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000242480, ENST00000373783, ENST00000411732, ENST00000439032, ENST00000493899, ENST00000637191, LRG_239t1); upstream_gene_variant(ENST00000425290)
No. of Studies	2 (Positive: 0; Negative: 2; 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
Gallitano, A. L.,2012			Association analysis: FBAT, P-value > 0.05 Association analysis: FBAT, P-value > 0.05	No significant association was observed in BD. No significant association was observed in BD.	Negative
Kim, S. H.,2011	G/A		For BD, chi-square tests: allele, OR=1.04, X²=0.1...... For BD, chi-square tests: allele, OR=1.04, X²=0.1224, P-value = 0.7265, P-value(permutation)=0.9994; Fisher's exact test, genotype, X²=0.1228, P-value = 0.9405 More...	No significant association was observed. No significant association was observed.	Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
EGR2	early growth response 2	10q21.1	3(1/2/0)
ADO	2-aminoethanethiol (cysteamine) dioxygenase	10q21.3	Mapped by Literature SNP

SNPs in LD with rs1509963 (count: 3) View in gBrowse (chr10:62696419..62828775 )

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]
rs10490965		0.825[CEU]
rs7074164	intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]; 1.0[TSI]; 0.888[CHB]; 0.959[CHD]; 0.826[JPT]
rs7911225	intron_variant; non_coding_transcript_variant	0.897[JPT]

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

Reference	Statistical Result	Description	Result Category
Kim, S. H.,2011	For SZ, chi-square tests:allele, OR=1.119, X²=0.8177, P-value = 0.3659, P-value(permutation)=0.8934;Fisher's exact test, genotype, X²=1.2583, P-value = 0.533	No significant association was observed.	Negative

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