PTSDgene database

SNP Report

Basic Info
Name rs159572 dbSNP Ensembl
Location 5:56211219 - 56211219(+)
Variant Seq C
Ancestral Allele C
Ref Seq A
Minor Allele Frequence 0.484026
Annotation intron_variant; non_coding_transcript_variant
Variant Effect intron_variant(ENST00000504958, ENST00000519114, ENST00000341048, ENST00000513241); non_coding_transcript_variant(ENST00000519114)
SIFT Annotation tolerated
SIFT Variant Effect tolerated(ENST00000504958, ENST00000513241, ENST00000341048)
PolyPhen Annotation probably_damaging
PolyPhen Variant Effect probably_damaging(ENST00000504958, ENST00000513241, ENST00000341048)
rSNP? Yes Link in rVarBase
Related Regulatory Elements n/a
Chromatin State Enhancers;Flanking Active TSS
No. of Marker's Association Results 1 (Positive: 1; Negative: 0; Trend: 0)
Source Literature

SNP related association results
Normal genetic study related association results (count: 1)
Reference Phenotype Statistical Values Author Comments Marker's Category
Stein, M. B.,2016 PTSD diagnosis Standard GWAS: EA: In NSS1 sample: OR=1.00, P-value=0.93. In...... Standard GWAS: EA: In NSS1 sample: OR=1.00, P-value=0.93. In NSS2 sample: OR=0.84, P-value=0.045. NSS sample meta-analysis: OR=0.94, P-value=0.23. In PPDS sample: OR=0.94, P-value=0.36. All sample meta analysis: OR=0.94, P-value=0.13. AA: In NSS1 sample: OR=1.57, P-value=4.91E-06. In NSS2 sample: OR=1.74, P-value=1.16E-03. NSS sample meta-analysis: OR=1.62, P-value=2.34E-08. In PPDS sample: OR=1.18, P-value=0.28. All sample meta analysis: OR=1.51, P-value=6.18E-08. LA: In NSS1 sample: OR=1.07, P-value=0.52. In NSS2 sample: OR=0.82, P-value=0.21. NSS sample meta-analysis: OR=0.99, P-value=0.88. In PPDS sample: OR=0.81, P-value=0.07. All sample meta analysis: OR=0.92, P-value=0.23. Trauma-Adjusted GWAS: AA: In NSS1 sample: OR=1.61, P-value=2.57E-06. In NSS2 sample: OR=1.75, P-value=1.14E-03. NSS sample meta-analysis: OR=1.64, P-value=1.18E-08. In PPDS sample: OR=1.1, P-value=0.56. All sample meta analysis: OR=1.5, P-value=1.09E-07. Sex, Age, and Lifetime Cumulative Trauma Adjusted GWAS: AA: In NSS1 sample: OR=1.55, P-value=1.83E-05. In NSS2 sample: OR=1.75, P-value=2.52E-03. NSS sample meta-analysis: OR=1.60, P-value=1.86E-07. In PPDS sample: OR=1.07, P-value=0.68. All sample meta analysis: OR=1.46, P-value=1.75E-07. More... A genome-wide significant locuswas found in ANKRD55 on chrom...... A genome-wide significant locuswas found in ANKRD55 on chromosome 5 (rs159572) and persisted after adjustment for cumulative trauma exposure in the African American samples from the NSS. Similar results were not found in the corresponding ancestry group from the PPDS sample, in other ancestral groups, or in transancestral meta-analyses. More... Significant

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Association Results (Positive/Negative/Trend)
ANKRD55 ankyrin repeat domain 55 5q11.2 1(1/0/0)

SNPs in LD with rs159572 (count: 30)
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: 30)

SNP related eQTL (count: 1)
Gene Symbol Gene Existed in PTSDgene? Tissue Trans/Cis Source
CRHR1-IT1 Yes Adipose Subcutaneous cis GTEx