SNP Report

Basic Info

Name	rs12118091 dbSNP Ensembl
Location	1:238413314 - 238413314(+)
Variant Seq	G
Ancestral Allele	G
Ref Seq	T
Minor Allele Frequence	0.128195
Annotation	upstream_gene_variant
SIFT Annotation	deleterious
SIFT Variant Effect	deleterious(ENST00000611898, ENST00000366570)
PolyPhen Annotation	unknown
PolyPhen Variant Effect	unknown(ENST00000604646)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription
No. of Marker's Association Results	1 (Positive: 0; Negative: 0; Trend: 1)
Source	Literature

SNP related association results

Normal genetic study related association results (count: 1)

Reference	Phenotype	Statistical Values	Author Comments	Marker's Category
Logue, M. W.,2013	PTSD	In discovery group (allele): OR=1.9, P-value=4.9E-06. In discovery group (allele): OR=1.9, P-value=4.9E-06.	It reached the suggestive level of significance in discovery...... It reached the suggestive level of significance in discovery group. More...	Trend

SNP related genes (count: 0)

SNPs in LD with rs12118091 (count: 13)

The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]

rs1021356		1(0/0/1)	0.9860[EUR]; 1.0000[AMR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs2039988	rs1021356 rs12118091	upstream_gene_variant	0.8025[EUR]
rs7551951	rs1021356 rs12118091	upstream_gene_variant	0.9461[EUR]; 0.9618[AMR]
rs10754636	rs1021356 rs12118091	upstream_gene_variant	0.9585[EUR]; 0.9608[AMR]
rs10802687	rs1021356 rs12118091	upstream_gene_variant	0.9930[EUR]; 0.8385[AFR]; 1.0000[AMR]
rs7529140	rs1021356 rs12118091	upstream_gene_variant	0.9526[EUR]; 0.9618[AMR]
rs12076526	rs1021356 rs12118091	upstream_gene_variant	0.9006[EUR]; 0.8728[AMR]
rs4659872	rs1021356 rs12118091	upstream_gene_variant	0.8912[EUR]; 0.8219[AMR]
rs7552223	rs1021356 rs12118091	upstream_gene_variant	0.9461[EUR]; 0.9618[AMR]
rs4348713	rs1021356 rs12118091	upstream_gene_variant	0.8708[EUR]
rs10754635	rs1021356 rs12118091	upstream_gene_variant	0.9461[EUR]; 0.9618[AMR]
rs7551947	rs1021356 rs12118091	upstream_gene_variant	0.9461[EUR]; 0.9618[AMR]
rs10737827	rs1021356 rs12118091	upstream_gene_variant	0.9585[EUR]; 0.9608[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
RP11-259G18.3	No	Adipose Subcutaneous	cis	GTEx