hum0014 Release Note
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| Research ID | Release Date | Type of Data |
|---|---|---|
| hum0014.v19 | 2020/04/20 | GWAS of dietary habits |
| hum0014.v18 | 2019/11/26 | GWAS of Breast cancer |
| hum0014.v17 | 2019/10/08 | GWAS of 40 diseases |
| hum0014.v16 | 2019/10/07 | target sequencing of 8 hereditary prostate cancer genes in 7,636 prostate cancer patients and 12,366 controls |
| hum0014.v15 | 2019/09/27 |
reference panel by using of WGS data of the biobank Japan project (N=1,037) and 1KGP p3v5 ALL (N=2,504) GWAS for height |
| hum0014.v14 | 2019/03/26 | GWAS of smoking behaviour |
| hum0014.v13 | 2019/01/25 | meta analysis of 4 GWASs for T2DM |
| hum0014.v12 | 2018/12/10 | meta analysis of 2 GWASs for T2DM with diabetic nephropathy |
| hum0014.v11 | 2018/10/16 | target sequencing of 11 hereditary breast cancer genes in 7,104 breast cancer patients and 23,731 controls |
| hum0014.v10 | 2018/08/13 | WGS for 1,026 individuals |
| hum0014.v9 | 2018/08/07 | GWAS for age at menarche and menopause |
| hum0014.v8 | 2018/05/01 | GWAS for 58 quantitative traits |
| hum0014.v7 | 2018/04/04 | GWAS for POAG |
| hum0014.v6 | 2017/09/08 |
GWAS for BMI Genotype data for 182,505 individuals |
| hum0014.v5 | 2017/05/18 |
GWAS for AF Genotype data for 8180 AFs |
| hum0014.v4 | 2016/02/02 | GWAS for AD |
| hum0014.v3 | 2016/01/28 | GWASs for T2DM |
| hum0014.v2 | 2015/12/28 | Genotype frequencies of 934 healthy individuals, about 190 patients from each of 35 diseases, 182 esophageal cancer patients, and 92 ALS patients. |
| hum0014.v1 | 2014/09/30 | GWAS for MI |
hum0014.v19
A total of 165,084 participants whose dietary habits status is available were genotyped by using of Illumina HumanOminiExpress BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (about 6,000,000 imputed SNVs) was performed (BOLT-LMM and ProbABEL program).
hum0014.v18
GWAS analysis files for breast cancer patients were added.
hum0014.v17
A total of 212,453 patients of 40 diseases were genotyped by using of HumanOmniExpress/HumanExome/OmniExpressExome BeadChip(Illumina). A genotype imputation was carried out using Minimac3 algorithm with the 1000 genomes Phase 3 v5 release as a reference. Then, genome-wide association studies (8,919,992 imputed SNVs) were performed (SAIGE v0.29.4.2).
hum0014.v16
A target capture sequencing analysis of 8 hereditary prostate cancer genes in 7,636 prostate cancer patients and 12,366 controls was performed. Fastq files are provided.
hum0014.v15
- A new reference panel was build with WGS data of the biobank Japan project (N=1,037) and the 1KGP p3v5 ALL (N=2,504) .
- A total of 159,095 individuals were genotyped by using of Illumina HumanOminiExpress BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the reference panel using WGS data of the biobank Japan project (N=1,037) and 1KGP p3v5 ALL (N=2,504). Then, a genome-wide association study (about 20,000,000 imputed variants) for height was performed (BOLT-LMM [ver2.2] and mach2qtl).
hum0014.v14
A total of 165,436 participants whose smoking status is available were genotyped by using of Illumina HumanOminiExpress BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (about 6,000,000 imputed SNVs) was performed (BOLT-LMM and ProbABEL program).
hum0014.v13
Result of meta analysis of following 4 GWASs (txt file) .
- 9,804 T2DM patients and 6,728 controls
- 5,639 T2DM patients and 19,407 controls
- 18,688 T2DM patients and 121,950 controls
- 2,483 T2DM patients and 7,065 controls
Genotypes were determined by using of Illumina [HumanOmniExpress, HumanExome, OmniExpressExome, Human610-Quad BeadChip].
hum0014.v12
Result of meta analysis of following 2 GWASs (csv file).
- 2,380 T2DM with diabetic nephropathy patients and 5,234 T2DM without diabetic nephropathy patients
- 429 T2DM with diabetic nephropathy patients and 358 T2DM without diabetic nephropathy patients
Genotypes were determined by using of OmniExpressExome Beadchip or Human610-Quad BeadChip [Illumina].
hum0014.v11
A target capture sequencing analysis of 11 hereditary breast cancer genes in 7,104 breast cancer patients and 23,731 controls was performed. Fastq files are provided.
hum0014.v10
Whole genome sequensing analysis for a total of 1,026 patients, who were registered Bio Bank Japan from 2003 - 2007 was performed. Fastq files are provided.
hum0014.v9
A total of 67,029 females with information on age at menarche and 43,861 females with information on age at menopause were genotyped by using of Illumina HumanOminiExpress BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (about 10,000,000 imputed SNVs) was performed (mach2dat program).
hum0014.v8
A total of 162,255 patients, who were registered Bio Bank Japan from 2003 - 2007 were genotyped by using of Illumina HumanOminiExpress-12 BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, genome-wide association studies (about 6,000,000 imputed SNVs) were performed (mach2qtl program).
hum0014.v7
A total of 3980 patients with primary open-angle glaucoma and 18,815 controls were genotyped by using of Illumina HumanOminiExpress BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (about 6,000,000 imputed SNVs) was performed (mach2dat program).
hum0014.v6
A total of 158,284 patients, who were registered Bio Bank Japan from 2003 - 2007 were genotyped by using of Illumina HumanOminiExpress-12 BeadChip, HumanExome, or OmniExpressExome BeadChip. A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (about 6,000,000 imputed SNVs) was performed (mach2qtl program).
hum0014.v5
A total of 8180 patients with atrial fibrillation, who were registered Bio Bank Japan from 2003 - 2007, and 28,612 controls were genotyped by using of Illumina HumanOminiExpress-12 BeadChip, HumanExome, or OmniExpressExome BeadChip (900,000 SNVs). A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (5,000,000 imputed SNVs) was performed (mach2dat program).
hum0014.v4
A total of 1472 patients with atopic dermatitis and 7966 controls were genotyped by using of Illumina HumanOminiExpress-12 BeadChip (606,164 SNVs). A genotype imputation was carried out using Minimac algorithm with the 1000 genomes Phase I v3 release as a reference. Then, a genome-wide association study (7,700,000 imputed SNVs) was performed using logic regression tests with imputed SNP dosage data (mach2dat program).
hum0014.v3
GWASs for T2DM were performed using 552,915 SNPs (9817 T2DM patients vs 6763 controls) and 479,088 SNPs (5646 T2DM patients vs 19,420 controls). Allele frequencies of T2DM patients and controls were compared.
Genotypes were determined by using of OmniExpressExome Beadchip or Human610-Quad BeadChip [Illumina], respectively.
hum0014.v2
Genotype frequencies of 934 healthy individuals, about 190 patients from each of 35 diseases, 182 esophageal cancer patients, and 92 ALS patients.
35 diseases:
Cancer (Lung cancer, Breast cancer, Gastric cancer, Colorectal cancer, Prostate cancer)
Cardiovascular diseases (Heart failure, Myocardial infarction, Unstable angina, Stable angina, Cardiac arrhythmias, Arteriosclerosis obliterans)
Cerebrovascular disorders (Brain infarction, Intracranial aneurysm)
Respiratory tract diseases (Interstitial pneumonitis & pulmonary fibrosis, Pulmonary emphysema, Bronchial asthma)
Chronic liver diseases (Chronic hepatitis C, Liver cirrhosis)
Eye diseases (Cataract, Glaucoma)
Others (Epilepsy, Periodontal disease, Urolithiasis, Nephrotic syndrome, Uterine myoma, Endometriosis, Osteoporosis, Rheumatoid arthritis, Amyotrophic lateral sclerosis, Hay fever, Atopic dermatitis, Drug eruptions , Hyperlipidemias, Diabetes mellitus, Basedow disease)
Illumina [Human610-Quad BeadChip, HumanHap550v3 Genotyping BeadChip], Perlegen Sciences [high-density oligonucleotide arrays], or Hologic Japan [Invader] were used for the genotyping.
hum0014.v1
A Genome-Wide Association Study (GWAS) for MI was performed using 455,781 SNPs (Illumina Human610-Quad BeadChip and HumanHap550v3 Genotyping BeadChip). Allele frequencies of 1666 MI patients and 3198 controls were compared.
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