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Dataset ID

NHA000073

Type of data
GWAS for age at menarche and menopause
Access criteria
Unrestricted-access
Total data volume
185 MB
File formats
  • Markdown
  • GZIP
Research
hum0014
Date published
2018-08-07
Date modified
2018-08-07
Secondary ID
hum0014.v9.Men.v1

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
hum0014.v9.Men.v1.gz185 MB
hum0014_README_Men_GWAS.mdDictionary file2.3 KB

Analysis method

Genotyping by array

Materials and participants
67,029 females with information on age at menarche
43,861 females with information on age at menopause
  • Sex
    Female
Sample description
gDNA extracted from peripheral blood cells
  • Tissue
    Peripheral blood
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Platform
Illumina HumanExome
Illumina HumanOmniExpress
Illumina HumanOmniExpressExome
Reference genome
GRCh37
QC and filtering
Genotyping QC: sample call rate < 0.98, SNV call rate < 0.99, HWE P < 1 x 10^-6
QC for reference panel: After excluding 11 closely related individuals, variants with HWE P < 1.0 x 10^-6, MAF < 0.01 were excluded.
QC after imputation: Variants with imputation quality of Rsq < 0.7 were excluded. We also excluded variants with |beta| > 4 in the uploaded files.
Imputation
minimac [imputation (1000 genomes Phase I v3)]
Analysis method
GenCall software (GenomeStudio)
Variant count
9,296,729 SNPs
Data use policy
NBDC data sharing policy (JGAP000001)