SNP Report

Basic Info

Name	rs17504106 dbSNP Ensembl
Location	5:161042632 - 161042632(+)
Variant Seq	C
Ancestral Allele	G
Ref Seq	G
Minor Allele Frequence	0.139976
Annotation	upstream_gene_variant
SIFT Annotation	tolerated
SIFT Variant Effect	tolerated(ENST00000327245)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000327245)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Enhancers
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
Ashley-Koch, A. E.,2015	Current PTSD	In NHB subset: OR=2.97, main effect P-value=4.72E-06. In NHB subset: OR=2.97, main effect P-value=4.72E-06.	This SNP was nominally significant with current PTSD among t...... This SNP was nominally significant with current PTSD among the NHB subset (P-value More...	Trend

G*E study related association result (count: 2)

Reference	Phenotype	Environment	Statistical Values	Author Comments	Marker's Category
Ashley-Koch, A. E.,2015	Current PTSD	Childhood trauma	Logistic regression (additive genetic model) in NHB subset: ...... Logistic regression (additive genetic model) in NHB subset: snp and child trauma interaction P-value=0.37. More...	We haven't observed significant evidence for geneenvironmen...... We haven't observed significant evidence for geneenvironment interactions of this snp with childhood trauma. More...	Non-significant
Ashley-Koch, A. E.,2015	Current PTSD	NTE (number of traumatic events)	Logistic regression (additive genetic model) in NHB subset: ...... Logistic regression (additive genetic model) in NHB subset: snp and total trauma interaction P-value=0.02. More...	Among the NHB, we observed nominally significant interaction...... Among the NHB, we observed nominally significant interactions with total trauma for this snp. More...	Non-significant

SNP related genes (count: 0)

SNPs in LD with rs17504106 (count: 44)

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

Literature-origin SNPs (count: 0)

LD-proxies (count: 44)

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs17444992	rs17504106	upstream_gene_variant	0.9144[EUR]; 0.9474[AMR]
rs4395669	rs17504106	upstream_gene_variant	0.9680[EUR]; 0.9820[AMR]
rs62391255	rs17504106	upstream_gene_variant	0.8081[EUR]
rs349728	rs17504106	upstream_gene_variant	0.9314[EUR]
rs62393286	rs17504106	upstream_gene_variant	0.9144[EUR]; 0.9474[AMR]
rs12109263	rs17504106	upstream_gene_variant	0.8200[EUR]
rs12109332	rs17504106	upstream_gene_variant	0.8081[EUR]
rs2090373	rs17504106	upstream_gene_variant	0.8081[EUR]
rs17503515	rs17504106	upstream_gene_variant	0.9178[EUR]; 0.8931[AMR]
rs7701740	rs17504106	upstream_gene_variant	0.8764[EUR]
rs62391257	rs17504106	upstream_gene_variant	0.8081[EUR]; 0.8252[AMR]
rs3862066	rs17504106	upstream_gene_variant	0.8200[EUR]; 0.8252[AMR]
rs4608966	rs17504106	upstream_gene_variant	0.8200[EUR]
rs384284	rs17504106	upstream_gene_variant	0.9023[EUR]
rs963871	rs17504106	upstream_gene_variant	0.9314[EUR]
rs62393271	rs17504106	upstream_gene_variant	0.9871[EUR]; 0.9292[AMR]
rs11749580	rs17504106	upstream_gene_variant	0.9144[EUR]; 0.9474[AMR]
rs55712769	rs17504106	upstream_gene_variant	0.8081[EUR]; 0.8252[AMR]
rs9313867	rs17504106	upstream_gene_variant	0.8764[EUR]
rs369830	rs17504106	upstream_gene_variant	0.9314[EUR]
rs11739699	rs17504106	upstream_gene_variant	0.9178[EUR]; 0.8931[AMR]
rs4921177	rs17504106	upstream_gene_variant	0.8006[AMR]
rs62393270	rs17504106	upstream_gene_variant	0.8200[EUR]; 0.8098[AMR]
rs7712101	rs17504106	upstream_gene_variant	0.8764[EUR]
rs73303554	rs17504106	upstream_gene_variant	0.9080[EUR]
rs4526145	rs17504106	upstream_gene_variant	0.9680[EUR]; 0.9820[AMR]
rs10074226	rs17504106	upstream_gene_variant	0.8006[AMR]
rs62393287	rs17504106	upstream_gene_variant	0.9144[EUR]; 0.9474[AMR]
rs368539	rs17504106	upstream_gene_variant	0.8297[EUR]
rs412838	rs17504106	upstream_gene_variant	0.9314[EUR]
rs62391254	rs17504106	upstream_gene_variant	0.8081[EUR]; 0.8098[AMR]
rs11738976	rs17504106	upstream_gene_variant	0.8081[EUR]
rs11135136	rs17504106	upstream_gene_variant	0.8081[EUR]
rs442200	rs17504106	upstream_gene_variant	0.8141[EUR]
rs55812059	rs17504106	upstream_gene_variant	0.9680[EUR]; 0.9820[AMR]
rs2421858	rs17504106	upstream_gene_variant	0.8081[EUR]
rs34422923	rs17504106	upstream_gene_variant	0.9680[EUR]; 0.9820[AMR]
rs1961662	rs17504106	upstream_gene_variant	0.8081[EUR]
rs4921176	rs17504106	upstream_gene_variant	0.8006[AMR]
rs62391251	rs17504106	upstream_gene_variant	0.8081[EUR]; 0.8252[AMR]
rs11747336	rs17504106	upstream_gene_variant	0.9618[EUR]; 0.9644[AMR]
rs73297794	rs17504106	upstream_gene_variant	0.8200[EUR]
rs349726	rs17504106	upstream_gene_variant	0.9254[EUR]
rs62393288	rs17504106	upstream_gene_variant	0.9680[EUR]; 0.9820[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
CRHR1-IT1	Yes	Adipose Subcutaneous	cis	GTEx