SNP Report
Basic Info
| Name | rs2616978 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 8:4620822 - 4620822(+) | ||
| Variant Seq | C | ||
| Ancestral Allele | T | ||
| Ref Seq | T | ||
| Minor Allele Frequence | 0.492412 | ||
| Annotation | intron_variant | ||
| Variant Effect | intron_variant(ENST00000602557, ENST00000602723, ENST00000400186, ENST00000635120, ENST00000520002) | ||
| SIFT Annotation | tolerated | ||
| SIFT Variant Effect | tolerated(ENST00000520002, ENST00000602723, ENST00000635120, ENST00000602557, ENST00000400186) | ||
| PolyPhen Annotation | benign | ||
| PolyPhen Variant Effect | benign(ENST00000520002, ENST00000602723, ENST00000635120, ENST00000602557, ENST00000400186) | ||
| rSNP? | No Link in rVarBase | ||
| Related Regulatory Elements | n/a | ||
| Chromatin State | Inactive region | ||
| No. of Marker's Association Results | 1 (Positive: 0; Negative: 0; Trend: 1) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Nievergelt, C. M.,2015 | PTSD | In subjects of Hispanic/Native American (HNA): P-value=2.8E...... In subjects of Hispanic/Native American (HNA): P-value=2.8E-06. More... | It met the threshold for suggestive evidence of association ...... It met the threshold for suggestive evidence of association (P-value<5E-06). More... | Trend |
G*E study related association result (count: 1)
| Reference | Phenotype | Environment | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|---|
| Nievergelt, C. M.,2015 | PTSD | Childhood trauma | In subjects of African, gene and childhood trauma interactio...... In subjects of African, gene and childhood trauma interaction: P-value=0.050. More... | It showed a suggestive interaction effect with childhood tra...... It showed a suggestive interaction effect with childhood trauma on PTSD. More... | Non-significant |
SNP related genes (count: 1)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| CSMD1 | CUB and Sushi multiple domains 1 | 8p23.2 | 1(0/0/1) |
SNPs in LD with rs2616978 (count: 12)
Literature-origin SNPs (count: 0)
LD-proxies (count: 12)
SNP related eQTL (count: 1)