Japanese

Japanese ENcyclopedia of GEnetic associations by Riken

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■LD Score data for East Asian population


ID DATA Description Citation PMID Size Updated Counts Download
1 Partitioned LD score for EAS baseline annotation of 53 functional categories. Genetic analysis of quantitative traits in the Japanese population links cell types to complex human diseases 29403010 276 MB 2017/12/11 6275
2 Partitioned LD score for EAS 10 cell-type-groups specific anotation. Genetic analysis of quantitative traits in the Japanese population links cell types to complex human diseases 29403010 947 MB 2017/12/11 1910
3 Partitioned LD score for EAS 220 cell-type specific annotation. Genetic analysis of quantitative traits in the Japanese population links cell types to complex human diseases 29403010 20.1 GB 2017/12/11 14063

■Allele frequencies of the variants identified by WGS of the Japanese population

ID DATA Description Citation PMID Size Updated Counts Download
1 Allele frequencies of the variants chromosomal positions (hg19), reference alleles, alternative alleles, alternative allele frequencies of the variants identified by WGS of the Japanese population (n = 1026). Deep whole-genome sequencing reveals recent selection signatures linked to evolution and disease risk of Japanese 29691385 97.3MB 2018/4/24 820

■MOPline SV calls & MOPline sample data

ID DATA Description Citation PMID Size Updated Counts Download
1 1KG-SV SVs detected using MOPline-7t from 414 high coverage whole genome sequencing (WGS) data (99 CEU, 103 CHB, 104 JPT, and 108 YRI samples) from the 1000 Genomes Project (1KG). Detection of trait-associated structural variations using short-read sequencing 37388916 82.3MB 2022/4/1 72
2 BBJ-SV SVs detected using MOPline-7t from 3,258 high coverage WGS data from BioBank Japan (BBJ). SVs in the file are filtered and annotated for their overlapping genes. Genotype data for each individual have been omitted to protect personal information. Detection of trait-associated structural variations using short-read sequencing 37388916 4.43MB 2022/4/1 127
3 MOPline sample data A sample dataset for testing the excecution of MOPline.

Sample_data.tar.gz

 2.82GB 2022/4/1
4 MOPline sample data output An output dataset generated with the Sample_data using MOPline-7t.

Sample_data_output.tar.gz

 567MB 2022/4/1
5 MOPline singularity sif file singularity image file for executing MOPline and 10 SV detection tools, except for MELT and INSurVeylor.

mopline.sif

 1.5GB 2024/4/23

■JEWEL WGS supplementary data

ID DATA Description Citation PMID Size Updated Counts Download
1 Allele Frequency Data site VCF of variants in JEWEL Decoding triancestral origins, archaic introgression, and natural selection in the Japanese population by whole-genome sequencing 38630824 3GB 2024/5/23 6
2 IBDMix data Introgressed regions called by IBDMix Decoding triancestral origins, archaic introgression, and natural selection in the Japanese population by whole-genome sequencing 38630824 34KB 2024/5/23 24
3 Sprime data Introgressed regions called by Sprime Decoding triancestral origins, archaic introgression, and natural selection in the Japanese population by whole-genome sequencing 38630824 5.4MB 2024/5/23 5
4 iHS data normalized iHS score and P values for variants in JEWEL Decoding triancestral origins, archaic introgression, and natural selection in the Japanese population by whole-genome sequencing 38630824 206MB 2024/5/23 8
5 FastSMC data DRC50 statistics Decoding triancestral origins, archaic introgression, and natural selection in the Japanese population by whole-genome sequencing 38630824 2.7MB 2024/5/23 4