NBDC Research ID: hum0196.v1
SUMMARY
Aims: Identification of biomarkers for risk of suicide and application to clinical use
Methods: GWAS
Participants/Materials: Individuals who died by suicide
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| hum0196.v1.gwas.v1 | meta-analyses of GWAS datasets for suicides vs. non-suicide individuals and for age at suicide | Unrestricted-access | 2019/12/20 |
*When the research results including the data which were downloaded from NHA/DRA, are published or presented somewhere, the data user must refer the papers which are related to the data, or include in the acknowledgment. Learn more
MOLECULAR DATA
| Participants/Materials |
[Suicide (ICD10：X83) vs. Non-suicide] 1st set: Suicide: 386 cases, Non-suicide: 7,458 cases 2nd set: Suicide: 360 cases, Non-suicide: 6,591 cases Total: Suicide: 746 cases, Non-suicide: 14,049 cases [Age at Suicide] 1st set: Suicide: 366 cases, 2nd set: Suicide: 353 cases Total: Suicide: 719 cases |
| Targets | genome wide SNVs |
| Target Loci for Capture Methods | - |
| Platform |
1st set: Illumina [HumanOmniExpress-24 BeadChip] 2nd set: Illumina [HumanOmniExpressExome-8 BeadChip] |
| Library Source | gDNAs extracted from postmortem tissues or peripheral blood cells |
| Cell Lines | - |
| Reagents (Kit, Version) | HumanOmniExpress / OmniExpressExome Beadchip kit |
| Genotype Call Methods (software) |
minimac [imputation (1000 genomes Phase 3)] GenCall software (GenomeStudio) |
| Association Analysis (software) |
Rvtests software METAL software |
| Filtering Methods |
Variants which match the following criteria were excluded: - sample call rate < 0.98, SNV call rate < 0.98, MAF < 0.01, - HWE P < 1 x 10-6 in control - imputation quality of Rsq < 0.7 in each of the 1st and 2nd dataset |
| Marker Number (after QC) |
[Suicide vs. Non-suicide] 8,381,404 SNPs (hg19) [Age at Suicide] 8,555,734 SNPs (hg19) |
| NBDC Dataset ID |
(Click the Dataset ID to download the file) |
| Total Data Volume | 420 MB |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Akitoyo Hishimoto
Affiliation: Department of Psychiatry, Kobe University Graduate School of Medicine
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (B) | Investigation on molecular mechanism causing the downward spiral of Stress, Depression, and Suicide | 17H04249 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Genome-wide association studies identify polygenic effects for completed suicide in the Japanese population | doi: 10.1038/s41386-019-0506-5 | hum0196.v1.gwas.v1 |
| 2 |
