SNP Report

Basic Info

Name	rs9990 dbSNP Ensembl
Location	chr10:62808178 - 62808178(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.324281
Functional Annotation	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant.
Consequence to Transcript	3_prime_UTR_variant(ENST00000373783); downstream_gene_variant(ENST00000242480, ENST00000411732, ENST00000439032); upstream_gene_variant(ENST00000425290)
No. of Studies	1 (Positive: 0; Negative: 1; 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
Kim, S. H.,2011	C/T		For BD, chi-square tests: allele, OR=1.193, X²=2....... For BD, chi-square tests: allele, OR=1.193, X²=2.6714, P-value = 0.1022, P-value(permutation)=0.4195; Fisher's exact test, genotype, X²=3.5156, P-value = 0.1724 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 rs9990 (count: 4) View in gBrowse (chr10:62803942..62808178 )

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]
rs9971363	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.803[CHB]; 0.903[CHD]
rs1509964	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs7090365	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.803[CHB]; 0.903[CHD]
rs10995312	3_prime_UTR_variant; upstream_gene_variant	0.95[CHB]; 1.0[CHD]; 1.0[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=1.244, X²=3.3587, P-value = 0.0668, P-value(permutation)=0.305;Fisher's exact test, genotype, X²=5.4069, P-value = 0.067	No significant association was observed.	Negative

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