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Dataset ID

NHA000131

Type of data
meta-analyses of GWAS datasets for suicides vs. non-suicide individuals and for age at suicide
Access criteria
Unrestricted-access
Total data volume
420 MB
File formats
  • DOCX
  • ZIP
Research
hum0196
Date published
2019-12-20
Date modified
2019-12-20
Secondary ID
hum0196.v1.gwas.v1

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
hum0196_dictionary_file.docxDictionary file17.7 KB
hum0196_v1_gwas_v1.zip420 MB

Analysis method

Genotyping by array

Materials and participants
[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
  • Health status
    Mixed
  • Subject count
    14,795 (Individual)
Disease
Suicide (X83)
Sample description
gDNAs extracted from postmortem tissues or peripheral blood cells
  • Tissue
    Peripheral blood
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Reagent kit
HumanOmniExpress BeadChip Kit
HumanOmniExpressExome BeadChip Kit
Platform
Illumina HumanOmniExpress
Illumina HumanOmniExpressExome
Reference genome
GRCh37
QC and filtering
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
Imputation
minimac [imputation (1000 genomes Phase 3)]
Analysis method
GenCall software (GenomeStudio)
Variant count
8,381,404 SNPs ([Suicide vs. non-suicide])
8,555,734 SNPs ([Age at time of suicide])
Data use policy
NBDC data sharing policy (JGAP000001)