PTSDgene database

SNP Report

Basic Info
Name rs9470080 dbSNP Ensembl
Location 6:35678658 - 35678658(+)
Variant Seq C
Ancestral Allele T
Ref Seq T
Minor Allele Frequence 0.363419
Annotation intron_variant
Variant Effect intron_variant(ENST00000542713, ENST00000539068, ENST00000357266, ENST00000536438)
SIFT Annotation deleterious; tolerated
SIFT Variant Effect deleterious(ENST00000542713); tolerated(ENST00000539068, ENST00000357266, ENST00000536438)
PolyPhen Annotation benign
PolyPhen Variant Effect benign(ENST00000539068, ENST00000542713, ENST00000357266, ENST00000536438)
rSNP? Yes Link in rVarBase
Related Regulatory Elements Chromatin interactive region
Chromatin State Enhancers;Weak transcription;Strong transcription;Genic enhancers
No. of Marker's Association Results 16 (Positive: 7; Negative: 9; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 16)
Reference Phenotype Statistical Values Author Comments Marker's Category
Watkins, L. E.,2016 Lifetime PTSD symptoms Main smaple: F=6.33, P-value=0.002. Replication sample: F=7....... Main smaple: F=6.33, P-value=0.002. Replication sample: F=7.36, P-value=0.001. More... Main effect of this SNP is significant. Main effect of this SNP is significant. Significant
Watkins, L. E.,2016 Re-experiencing symptoms F=5.49, P-value=0.004 F=5.49, P-value=0.004 Main effect of this SNP is not significant. Main effect of this SNP is not significant. Non-significant
Watkins, L. E.,2016 Avoidance symptoms (DSM-IV) F=6.02, P-value=0.003 F=6.02, P-value=0.003 Main effect of this SNP is significant. Main effect of this SNP is significant. Significant
Watkins, L. E.,2016 Emotional numbing F=2.13, P-value=0.12 F=2.13, P-value=0.12 Main effect of this SNP is not significant. Main effect of this SNP is not significant. Non-significant
Watkins, L. E.,2016 Hyperarousal symptoms F=6.34, P-value=0.002 F=6.34, P-value=0.002 Main effect of this SNP is significant. Main effect of this SNP is significant. Significant
Watkins, L. E.,2016 Intrusion symptoms F=4.74, P-value=0.009 F=4.74, P-value=0.009 Main effect of this SNP is not significant. Main effect of this SNP is not significant. Non-significant
Watkins, L. E.,2016 Avoidance symptoms (DSM-5) F=3.00, P-value=0.051 F=3.00, P-value=0.051 Main effect of this SNP is not significant. Main effect of this SNP is not significant. Non-significant
Watkins, L. E.,2016 Negative alterations in cognitions and mood symptoms F=4.46, P-value=0.012 F=4.46, P-value=0.012 Main effect of this SNP is not significant. Main effect of this SNP is not significant. Non-significant
Watkins, L. E.,2016 Alterations in arousal and reactivity symptoms F=14.01, P-value<0.001 F=14.01, P-value<0.001 Main effect of this SNP is significant. Main effect of this SNP is significant. Significant
David, A. C.,2012 Improvement in CAPS PTSD symptoms scores Linear regression: B=8.05, SE(B)=5.1, beta=0.38, P-value>0....... Linear regression: B=8.05, SE(B)=5.1, beta=0.38, P-value>0.05, R2=0.34. More... A significant association of this SNP with improvement in PT...... A significant association of this SNP with improvement in PTSD symptom scores. Similar results were found when peritraumatic distress was used as a predictor instead of peritraumatic dissociation. More... Non-significant
Xie, P.,2010 Lifetime PTSD In African American, main effect: OR=0.58, 95%CI=0.41-0.82,...... In African American, main effect: OR=0.58, 95%CI=0.41-0.82, P-value=0.0025. In European American, it showed no significant association between genotypes and PTSD (data not shown). More... In the primary analyses, logistic GEE regression showed no s...... In the primary analyses, logistic GEE regression showed no significant association betweenFKBP5?genotypes and PTSD in AAs or EAs (data not shown). When main FKBP5 genotype effects and their interaction effects with childhood adversity were entered into the logistic regression models simultaneously, all four SNPs were significantly associated with the development of PTSD in AAs. After correction for multiple testing, it remained significant (Bonferroni correction, threshold P-value=0.05/4=0.0125). SNP rs9470080 had the strongest conditional effect. However, in EAs, none of the four SNPs were associated with the development of PTSD when the interactive effect of genotype and childhood adversity was also in the logistic regression model.The results from the secondary analyses are very similar to the primary results. More... Significant
David, A. C.,2012 Memory Performance Relation between FKBP5 gene and memory performance at T2: r...... Relation between FKBP5 gene and memory performance at T2: r=0.02, P-value=0.94. More... FKBP5 alone was not found to be associated with memory perfo...... FKBP5 alone was not found to be associated with memory performance at T2. More... Non-significant
Dunn, E. C.,2014 Post Traumatic Growth (PTG) T4: joint test P-value> 0.05, variant P-value=0.024. T4: joint test P-value> 0.05, variant P-value=0.024. We found a significant association between FKBP5 and PTG. We found a significant association between FKBP5 and PTG. Significant
Dunn, E. C.,2014 Post-traumatic stress symptoms (PTS) T4: joint test P-value> 0.05, variant P-value> 0.05. T4: joint test P-value> 0.05, variant P-value> 0.05. We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and PTS (P-values > 0.05). More... Non-significant
David, A. C.,2012 PTSD Diagnostic Status at T2 (remitted vs. unremitting PTSD) recessive alleles were combi...... (remitted vs. unremitting PTSD) recessive alleles were combined and genotype frequencies were compared using the following model: CT+TT vs. CC, T allele, X2=6.77, P-value=0.004. More... These results suggest that the CC genotype at rs9470080 is a...... These results suggest that the CC genotype at rs9470080 is associated with unremitting chronic PTSD. More... Significant
Binder, E. B.,2008 PTSD Symptoms (PSS scores) No available detail information. No available detail information. We found no significant main effect of FKBP5 genotypes on PS...... We found no significant main effect of FKBP5 genotypes on PSS total score. More... Non-significant
G*E study related association result (count: 16)
Reference Phenotype Environment Statistical Values Author Comments Marker's Category
Watkins, L. E.,2016 Lifetime PTSD symptoms Childhood abuse Main smaple: F=3.65, P-value=0.006. Replication sample: F=6....... Main smaple: F=3.65, P-value=0.006. Replication sample: F=6.09, P-value=0.002. More... The interaction effect of the SNP and childhood abuse is sig...... The interaction effect of the SNP and childhood abuse is significant. More... Significant
Watkins, L. E.,2016 Re-experiencing symptoms Childhood abuse F=1.23, P-value=0.29 F=1.23, P-value=0.29 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Avoidance symptoms (DSM-IV) Childhood abuse F=0.62, P-value=0.54 F=0.62, P-value=0.54 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Emotional numbing Childhood abuse F=0.29, P-value=0.75 F=0.29, P-value=0.75 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Hyperarousal symptoms Childhood abuse F=5.14, P-value=0.006 F=5.14, P-value=0.006 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Intrusion symptoms Childhood abuse F=4.74, P-value=0.009 F=4.74, P-value=0.009 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Avoidance symptoms (DSM-5) Childhood abuse F=3.00, P-value=0.051 F=3.00, P-value=0.051 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Negative alterations in cognitions and mood symptoms Childhood abuse F=4.46, P-value=0.012 F=4.46, P-value=0.012 The interaction effect of the SNP and childhood abuse is not...... The interaction effect of the SNP and childhood abuse is not significant. More... Non-significant
Watkins, L. E.,2016 Alterations in arousal and reactivity symptoms Childhood abuse F=14.01, P-value<0.001 F=14.01, P-value<0.001 The interaction effect of the SNP and childhood abuse is sig...... The interaction effect of the SNP and childhood abuse is significant. More... Significant
Xie, P.,2010 Lifetime PTSD Childhood adversity (Three types of childhood adversity were considered in this study: namely, witnessing or experiencing a violent crime, experiencing sexual abuse, and experiencing physical abuse.) In African Americans, the effects of childhood adversity x F...... In African Americans, the effects of childhood adversity x FKBP5 genotype on risk for PTSD (before correction for multiple tests): OR=1.96, CI=1.24-3.10, P-value=0.0040. More... Before correction for multiple tests, two of the four SNPs i...... Before correction for multiple tests, two of the four SNPs in FKBP5 significantly modified the effect of childhood adversity on risk for PTSD in AAs (rs9296158: OR=1.69, 95% CI=1.05-2.71, P=0.03; rs9470080: OR=1.96, 95% CI=1.24-3.10, P=0.004). (These same two SNPs also were the most significant in the previous study by Binder et al, (2008).) After Bonferroni correction, the signal from rs9470080 remained significant. There was no interactive effect of FKBP5 genotypes and childhood adversity in EAs. The results from the secondary analyses are very similar to the primary results. More... Significant
David, A. C.,2012 Memory Performance Peritraumatic Responses (PDEQ, peritraumatic dissociation) Association between the new GxE interaction variable and mem...... Association between the new GxE interaction variable and memory performance at T2 with partial correlations controlling for main effects: r=0.52, P-value=0.03. Post-hoc analyses (bivariate correlations) were conducted, the dominant homozygous genotypes CC: r=-0.68, P-value=0.03; other genotypes: r=0.04, P-value=0.91. More... Significant partial correlations were found between the new ...... Significant partial correlations were found between the new G x PDEQ (i.e., peritraumatic dissociation) variable and memory performance for this SNP. These results suggest an interactive effect of FKBP5 SNPs and subjective trauma severity on memory performance. Significant negative correlations were found for individuals with the dominant homozygous genotypes. No significant correlations were found for the other genotypes. More... Significant
David, A. C.,2012 Memory Performance Peritraumatic Responses (PDI, peritraumatic distress) Association between the new GxE interaction variable and mem...... Association between the new GxE interaction variable and memory performance at T2 with partial correlations controlling for main effects: r=0.50, P-value=0.04. Post-hoc analyses (bivariate correlations) were conducted, the dominant homozygous genotypes CC: r=-0.69, P-value=0.03; other genotypes: r=0.30, P-value=0.40. More... Significant partial correlations were found between the new ...... Significant partial correlations were found between the new G x PDI (i.e., peritraumatic distress) variable and memory performance for this SNP. These results suggest an interactive effect of FKBP5 SNPs and subjective trauma severity on memory performance. Significant negative correlations were found for individuals with the dominant homozygous genotypes. No significant correlations were found for the other genotypes. More... Significant
Binder, E. B.,2008 Pearson correlation R value of CTQ Total Score and PSS Scores Child abuse CC vs TT group: Z values for difference of correlation coeff...... CC vs TT group: Z values for difference of correlation coefficient=1.9;CT vs CC group: Z values for difference of correlation coefficient=1.20;TT vs CT group: Z values for difference of correlation coefficient=1.03. More... They observed non-significantly higher correlations of CTQ t...... They observed non-significantly higher correlations of CTQ total score and PSS score between some genotype group of this SNP. More... Non-significant
Dunn, E. C.,2014 Post Traumatic Growth (PTG) Hurricane exposure T4: joint test P-value> 0.05, GxE interaction P-value> 0.05. T4: joint test P-value> 0.05, GxE interaction P-value> 0.05. We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and PTG (P-values > 0.05). More... Non-significant
Dunn, E. C.,2014 Post-traumatic stress symptoms (PTS) Hurricane exposure Genetic variants and T3 or T4 PTS interaction: all P-values ...... Genetic variants and T3 or T4 PTS interaction: all P-values > 0.05. More... We did not find any significant associations between the gen...... We did not find any significant associations between the genetic variants and T3 or T4 PTS (all P-values > 0.05). More... Non-significant
Binder, E. B.,2008 PTSD Symptoms (PSS scores) Child abuse Interaction of it with child abuse level (to predict PTSD sy...... Interaction of it with child abuse level (to predict PTSD symptoms),an interaction P-value<.002 (after correcting for multiple tesing). After adjusting for variables (controlling for BDI score as a continuous measure of depression symptoms or the 4-level non-child abuse trauma variable in addtion to age and sex) , the interaction P-value=0.06. More... We identified the SNP that showed significant interactions w...... We identified the SNP that showed significant interactions with child abuse afterc orrecting for multiple testing. More... Significant


SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
FKBP5 FK506 binding protein 5 6p21.31 25(12/13/0)
MIR5690 microRNA 5690 6 Mapped by LD-proxy, rSNP target

SNPs in LD with rs9470080 (count: 36)
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: 3)

LD-proxies (count: 33)


SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
CRHR1 Yes Adipose Subcutaneous cis GTEx