PTSDgene database

SNP Report

Basic Info
Name rs11178997 dbSNP Ensembl
Location 12:71938373 - 71938373(+)
Variant Seq A
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.151158
Annotation upstream_gene_variant
Variant Effect upstream_gene_variant(ENST00000333850, ENST00000546576)
SIFT Annotation tolerated_-_low_confidence
SIFT Variant Effect tolerated_-_low_confidence(ENST00000333850)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000333850)
rSNP? Yes Link in rVarBase
Related Regulatory Elements TF binding region;Chromatin interactive region
Chromatin State Weak transcription
No. of Marker's Association Results 7 (Positive: 2; Negative: 5; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 7)
Reference Phenotype Statistical Values Author Comments Marker's Category
Cao, C.,2014 Anxious arousal symptoms In total sample: t=-0.633, P-value=0.627, in females: t=0....... In total sample: t=-0.633, P-value=0.627, in females: t=0.544, P-value=0.587, in males: t=0.122, P-value=0.903. More... No significant relationship. No significant relationship. Non-significant
Cao, C.,2014 Avoidance symptoms In total sample: t=0.422, P-value=0.039, in females: t=2.7...... In total sample: t=0.422, P-value=0.039, in females: t=2.765, P-value=0.006, in males: t=-0.364, P-value=0.717. More... The rs11178997 'TT' genotype was significantly associated wi...... The rs11178997 'TT' genotype was significantly associated with avoidance symptoms in women but not in men. More... Significant
Cao, C.,2014 Dysphoric arousal symptoms In total sample: t=-0.406, P-value=0.642, in females: t=0....... In total sample: t=-0.406, P-value=0.642, in females: t=0.210, P-value=0.834, in males: t=0.414, P-value=0.680. More... No significant relationship. No significant relationship. Non-significant
Cao, C.,2014 Emotional numbing symptoms In total sample: t=1.860, P-value=0.023, in females: t=2.5...... In total sample: t=1.860, P-value=0.023, in females: t=2.518, P-value=0.013, in males: t=0.539, P-value=0.592. More... No significant relationship. No significant relationship. Non-significant
Cao, C.,2014 PTSD symptoms In total sample: t=0.082, P-value=0.133, in females: t=1.8...... In total sample: t=0.082, P-value=0.133, in females: t=1.807, P-value=0.072, in males: t=0.128, P-value=0.899. More... No significant relationship. No significant relationship. Non-significant
Goenjian, A. K.,2012 PTSD-RI (PTSD symptoms) After adjusting for age, sex, exposure and environmental var...... After adjusting for age, sex, exposure and environmental variables, analyses of PTSD-RI and the 't' allele of TPH2 SNP rs11178997: X2=3.87, df=1, P-value=0.03. Lod score=0.02. More... After adjusting for age, sex, exposure and environmental var...... After adjusting for age, sex, exposure and environmental variables, analyses indicated a significant association of PTSD-RI and the 't' allele of TPH2 SNP rs11178997. This gene explained 4% of the variance of PTSD-RI scores. More... Significant
Cao, C.,2014 Reexperiencing symptoms In total sample: t=-1.099, P-value=0.417, in females: t=1....... In total sample: t=-1.099, P-value=0.417, in females: t=1.231, P-value=0.220, in males: t=-0.304, P-value=0.762. More... No significant relationship. No significant relationship. Non-significant


SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
TPH2 tryptophan hydroxylase 2 12q15 10(3/7/0)
TBC1D15 TBC1 domain family member 15 12q15 Mapped by LD-proxy, rSNP target

SNPs in LD with rs11178997 (count: 27)
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: 27)


SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
RP11-707O23.5 No Adipose Subcutaneous cis GTEx