データセット ID

NHA000190

Name: NHA000190: 腸内微生物叢のGWAS、血中代謝物のGWAS、KEGG Gene OrthologおよびKEGG PathwayのGWAS
Published: 2023-10-02

データの種類: 腸内微生物叢のGWAS
血中代謝物のGWAS
KEGG Gene OrthologおよびKEGG PathwayのGWAS
アクセス制限: 非制限公開
総データ量: 320 GB
ファイル形式: TSV
DOCX
研究: hum0197
公開日: 2023-10-02
更新日: 2023-10-02
Secondary ID: hum0197.v18.gwas.v1

このデータセットに紐づく非制限公開ファイル

URL の一覧のダウンロード

表示件数

100

20 50 100

501–600 / 732 件

ファイル名	ラベル	サイズ
microbiome_L7_species_Eisenbergiella_sp_QCed_sumstats.tsv.gz	Eisenbergiella_sp	523 MB
microbiome_L7_species_Emergencia_timonensis_QCed_sumstats.tsv.gz	Emergencia_timonensis	524 MB
microbiome_L7_species_Enorma_massiliensis_QCed_sumstats.tsv.gz	Enorma_massiliensis	525 MB
microbiome_L7_species_Enterobacter_cloacae_QCed_sumstats.tsv.gz	Enterobacter_cloacae	525 MB
microbiome_L7_species_Enterobacter_ludwigii_QCed_sumstats.tsv.gz	Enterobacter_ludwigii	525 MB
microbiome_L7_species_Enterobacter_sp_QCed_sumstats.tsv.gz	Enterobacter_sp	522 MB
microbiome_L7_species_Enterococcus_avium_QCed_sumstats.tsv.gz	Enterococcus_avium	524 MB
microbiome_L7_species_Enterococcus_casseliflavus_QCed_sumstats.tsv.gz	Enterococcus_casseliflavus	526 MB
microbiome_L7_species_Enterococcus_faecalis_QCed_sumstats.tsv.gz	Enterococcus_faecalis	525 MB
microbiome_L7_species_Enterococcus_faecium_QCed_sumstats.tsv.gz	Enterococcus_faecium	524 MB
microbiome_L7_species_Enterococcus_gallinarum_QCed_sumstats.tsv.gz	Enterococcus_gallinarum	525 MB
microbiome_L7_species_Enterococcus_raffinosus_QCed_sumstats.tsv.gz	Enterococcus_raffinosus	525 MB
microbiome_L7_species_Enterococcus_sp_QCed_sumstats.tsv.gz	Enterococcus_sp	522 MB
microbiome_L7_species_Erysipelatoclostridium_ramosum_QCed_sumstats.tsv.gz	Erysipelatoclostridium_ramosum	526 MB
microbiome_L7_species_Erysipelatoclostridium_sp_QCed_sumstats.tsv.gz	Erysipelatoclostridium_sp	526 MB
microbiome_L7_species_Erysipelotrichaceae_bacterium_QCed_sumstats.tsv.gz	Erysipelotrichaceae_bacterium	526 MB
microbiome_L7_species_Escherichia_coli_QCed_sumstats.tsv.gz	Escherichia_coli	523 MB
microbiome_L7_species_Escherichia_fergusonii_QCed_sumstats.tsv.gz	Escherichia_fergusonii	525 MB
microbiome_L7_species_Escherichia_sp_QCed_sumstats.tsv.gz	Escherichia_sp	522 MB
microbiome_L7_species_Eubacterium_dolichum_QCed_sumstats.tsv.gz	Eubacterium_dolichum	525 MB
microbiome_L7_species_Eubacterium_eligens_QCed_sumstats.tsv.gz	Eubacterium_eligens	524 MB
microbiome_L7_species_Eubacterium_hallii_QCed_sumstats.tsv.gz	Eubacterium_hallii	524 MB
microbiome_L7_species_Eubacterium_limosum_QCed_sumstats.tsv.gz	Eubacterium_limosum	524 MB
microbiome_L7_species_Eubacterium_ramulus_QCed_sumstats.tsv.gz	Eubacterium_ramulus	524 MB
microbiome_L7_species_Eubacterium_rectale_QCed_sumstats.tsv.gz	Eubacterium_rectale	524 MB
microbiome_L7_species_Eubacterium_siraeum_QCed_sumstats.tsv.gz	Eubacterium_siraeum	525 MB
microbiome_L7_species_Eubacterium_sp_QCed_sumstats.tsv.gz	Eubacterium_sp	522 MB
microbiome_L7_species_Eubacterium_sulci_QCed_sumstats.tsv.gz	Eubacterium_sulci	523 MB
microbiome_L7_species_Eubacterium_ventriosum_QCed_sumstats.tsv.gz	Eubacterium_ventriosum	525 MB
microbiome_L7_species_Faecalibacterium_cf_QCed_sumstats.tsv.gz	Faecalibacterium_cf	525 MB
microbiome_L7_species_Faecalibacterium_prausnitzii_QCed_sumstats.tsv.gz	Faecalibacterium_prausnitzii	526 MB
microbiome_L7_species_Faecalibacterium_sp_QCed_sumstats.tsv.gz	Faecalibacterium_sp	525 MB
microbiome_L7_species_Faecalicatena_contorta_QCed_sumstats.tsv.gz	Faecalicatena_contorta	525 MB
microbiome_L7_species_Faecalicoccus_pleomorphus_QCed_sumstats.tsv.gz	Faecalicoccus_pleomorphus	526 MB
microbiome_L7_species_Faecalitalea_cylindroides_QCed_sumstats.tsv.gz	Faecalitalea_cylindroides	526 MB
microbiome_L7_species_Firmicutes_bacterium_QCed_sumstats.tsv.gz	Firmicutes_bacterium	525 MB
microbiome_L7_species_Flavonifractor_plautii_QCed_sumstats.tsv.gz	Flavonifractor_plautii	525 MB
microbiome_L7_species_Flavonifractor_sp_QCed_sumstats.tsv.gz	Flavonifractor_sp	523 MB
microbiome_L7_species_Fournierella_massiliensis_QCed_sumstats.tsv.gz	Fournierella_massiliensis	526 MB
microbiome_L7_species_Fusicatenibacter_saccharivorans_QCed_sumstats.tsv.gz	Fusicatenibacter_saccharivorans	526 MB
microbiome_L7_species_Fusicatenibacter_sp_QCed_sumstats.tsv.gz	Fusicatenibacter_sp	524 MB
microbiome_L7_species_Fusobacterium_mortiferum_QCed_sumstats.tsv.gz	Fusobacterium_mortiferum	525 MB
microbiome_L7_species_Fusobacterium_nucleatum_QCed_sumstats.tsv.gz	Fusobacterium_nucleatum	525 MB
microbiome_L7_species_Fusobacterium_sp_QCed_sumstats.tsv.gz	Fusobacterium_sp	522 MB
microbiome_L7_species_Fusobacterium_ulcerans_QCed_sumstats.tsv.gz	Fusobacterium_ulcerans	525 MB
microbiome_L7_species_Fusobacterium_varium_QCed_sumstats.tsv.gz	Fusobacterium_varium	524 MB
microbiome_L7_species_Gabonia_massiliensis_QCed_sumstats.tsv.gz	Gabonia_massiliensis	524 MB
microbiome_L7_species_Gabonibacter_massiliensis_QCed_sumstats.tsv.gz	Gabonibacter_massiliensis	526 MB
microbiome_L7_species_Gardnerella_vaginalis_QCed_sumstats.tsv.gz	Gardnerella_vaginalis	525 MB
microbiome_L7_species_Gemella_haemolysans_QCed_sumstats.tsv.gz	Gemella_haemolysans	524 MB
microbiome_L7_species_Gemella_morbillorum_QCed_sumstats.tsv.gz	Gemella_morbillorum	524 MB
microbiome_L7_species_Gemella_sanguinis_QCed_sumstats.tsv.gz	Gemella_sanguinis	523 MB
microbiome_L7_species_Gemmiger_formicilis_QCed_sumstats.tsv.gz	Gemmiger_formicilis	524 MB
microbiome_L7_species_Gordonibacter_pamelaeae_QCed_sumstats.tsv.gz	Gordonibacter_pamelaeae	525 MB
microbiome_L7_species_Granulicatella_adiacens_QCed_sumstats.tsv.gz	Granulicatella_adiacens	525 MB
microbiome_L7_species_Haemophilus_haemolyticus_QCed_sumstats.tsv.gz	Haemophilus_haemolyticus	525 MB
microbiome_L7_species_Haemophilus_parainfluenzae_QCed_sumstats.tsv.gz	Haemophilus_parainfluenzae	526 MB
microbiome_L7_species_Harryflintia_acetispora_QCed_sumstats.tsv.gz	Harryflintia_acetispora	525 MB
microbiome_L7_species_Holdemanella_biformis_QCed_sumstats.tsv.gz	Holdemanella_biformis	525 MB
microbiome_L7_species_Holdemania_filiformis_QCed_sumstats.tsv.gz	Holdemania_filiformis	525 MB
microbiome_L7_species_Holdemania_massiliensis_QCed_sumstats.tsv.gz	Holdemania_massiliensis	525 MB
microbiome_L7_species_Hungatella_hathewayi_QCed_sumstats.tsv.gz	Hungatella_hathewayi	525 MB
microbiome_L7_species_Intestinibacter_bartlettii_QCed_sumstats.tsv.gz	Intestinibacter_bartlettii	526 MB
microbiome_L7_species_Intestinimonas_massiliensis_QCed_sumstats.tsv.gz	Intestinimonas_massiliensis	526 MB
microbiome_L7_species_Johnsonella_ignava_QCed_sumstats.tsv.gz	Johnsonella_ignava	524 MB
microbiome_L7_species_Klebsiella_aerogenes_QCed_sumstats.tsv.gz	Klebsiella_aerogenes	524 MB
microbiome_L7_species_Klebsiella_michiganensis_QCed_sumstats.tsv.gz	Klebsiella_michiganensis	525 MB
microbiome_L7_species_Klebsiella_oxytoca_QCed_sumstats.tsv.gz	Klebsiella_oxytoca	524 MB
microbiome_L7_species_Klebsiella_pneumoniae_QCed_sumstats.tsv.gz	Klebsiella_pneumoniae	525 MB
microbiome_L7_species_Klebsiella_quasipneumoniae_QCed_sumstats.tsv.gz	Klebsiella_quasipneumoniae	526 MB
microbiome_L7_species_Klebsiella_sp_QCed_sumstats.tsv.gz	Klebsiella_sp	522 MB
microbiome_L7_species_Klebsiella_variicola_QCed_sumstats.tsv.gz	Klebsiella_variicola	524 MB
microbiome_L7_species_Lachnoanaerobaculum_sp_QCed_sumstats.tsv.gz	Lachnoanaerobaculum_sp	525 MB
microbiome_L7_species_Lachnoclostridium_sp_QCed_sumstats.tsv.gz	Lachnoclostridium_sp	525 MB
microbiome_L7_species_Lachnospira_pectinoschiza_QCed_sumstats.tsv.gz	Lachnospira_pectinoschiza	526 MB
microbiome_L7_species_Lachnospira_sp_QCed_sumstats.tsv.gz	Lachnospira_sp	522 MB
microbiome_L7_species_Lachnospiraceae_bacterium_QCed_sumstats.tsv.gz	Lachnospiraceae_bacterium	526 MB
microbiome_L7_species_Lachnotalea_sp_QCed_sumstats.tsv.gz	Lachnotalea_sp	522 MB
microbiome_L7_species_Lactobacillus_amylovorus_QCed_sumstats.tsv.gz	Lactobacillus_amylovorus	526 MB
microbiome_L7_species_Lactobacillus_casei_QCed_sumstats.tsv.gz	Lactobacillus_casei	524 MB
microbiome_L7_species_Lactobacillus_crispatus_QCed_sumstats.tsv.gz	Lactobacillus_crispatus	525 MB
microbiome_L7_species_Lactobacillus_delbrueckii_QCed_sumstats.tsv.gz	Lactobacillus_delbrueckii	526 MB
microbiome_L7_species_Lactobacillus_fermentum_QCed_sumstats.tsv.gz	Lactobacillus_fermentum	525 MB
microbiome_L7_species_Lactobacillus_gasseri_QCed_sumstats.tsv.gz	Lactobacillus_gasseri	525 MB
microbiome_L7_species_Lactobacillus_mucosae_QCed_sumstats.tsv.gz	Lactobacillus_mucosae	525 MB
microbiome_L7_species_Lactobacillus_oris_QCed_sumstats.tsv.gz	Lactobacillus_oris	524 MB
microbiome_L7_species_Lactobacillus_paracasei_QCed_sumstats.tsv.gz	Lactobacillus_paracasei	525 MB
microbiome_L7_species_Lactobacillus_plantarum_QCed_sumstats.tsv.gz	Lactobacillus_plantarum	525 MB
microbiome_L7_species_Lactobacillus_reuteri_QCed_sumstats.tsv.gz	Lactobacillus_reuteri	525 MB
microbiome_L7_species_Lactobacillus_ruminis_QCed_sumstats.tsv.gz	Lactobacillus_ruminis	525 MB
microbiome_L7_species_Lactobacillus_sakei_QCed_sumstats.tsv.gz	Lactobacillus_sakei	524 MB
microbiome_L7_species_Lactobacillus_salivarius_QCed_sumstats.tsv.gz	Lactobacillus_salivarius	525 MB
microbiome_L7_species_Lactobacillus_vaginalis_QCed_sumstats.tsv.gz	Lactobacillus_vaginalis	525 MB
microbiome_L7_species_Lactococcus_garvieae_QCed_sumstats.tsv.gz	Lactococcus_garvieae	524 MB
microbiome_L7_species_Lactococcus_lactis_QCed_sumstats.tsv.gz	Lactococcus_lactis	524 MB
microbiome_L7_species_Leuconostoc_lactis_QCed_sumstats.tsv.gz	Leuconostoc_lactis	524 MB
microbiome_L7_species_Marvinbryantia_formatexigens_QCed_sumstats.tsv.gz	Marvinbryantia_formatexigens	526 MB
microbiome_L7_species_Massilioclostridium_coli_QCed_sumstats.tsv.gz	Massilioclostridium_coli	525 MB
microbiome_L7_species_Mediterraneibacter_massiliensis_QCed_sumstats.tsv.gz	Mediterraneibacter_massiliensis	527 MB
microbiome_L7_species_Megamonas_funiformis_QCed_sumstats.tsv.gz	Megamonas_funiformis	525 MB

501–600 / 732 件

解析手法

genome wide SNPs

材料と対象者: 日本人集団：524名（423種の微生物）
日本人集団：362名（306種の代謝物）
日本人集団：524名（KEGG Gene OrthologおよびKEGG Pathway）; 対象者数
524 (人数)
対象集団
日本人
試料説明: 末梢血から抽出したDNA; 組織
末梢血
腫瘍 / 非腫瘍
非腫瘍
実験方法: Genotyping by array
WGS
試薬キット: Infinium Asian Screening Array Kit
KAPA Hyper Prep Kit
TruSeq DNA PCR-Free Library Prep Kit
プラットフォーム: Illumina HiSeq 2500
Illumina HiSeq 3000
Illumina HiSeq X
Illumina Infinium Asian Screening Array
Illumina NovaSeq 6000
参照ゲノム: GRCh37
QC・フィルタリング: ・SNP array data：
サンプル QC：We excluded individuals with low genotyping call rates (call rate < 98%). We included individuals of the estimated Asian ancestry using PCA.
バリアント QC：We excluded variants with (1) genotyping call rate < 99%, (2) minor allele count < 5, (3) P-value for Hardy-Weinberg equilibrium < 1.0 × 10^−10, and (4) > 5% allele frequency difference compared with the imputation reference panel or the allele frequency panel of Tohoku Medical Megabank Project.
インピュテーション後のQC：We excluded imputed variants with Rsq < 0.7 and minor allele frequency < 1%.
・WGS：
We excluded variants with genotype call rate <90%, ExcessHet > 60, Hardy-Weinberg P<1.0×10−10
After imputation with Beagle v5.1, we excluded imputed variants with minor allele frequency < 1%.
インピュテーション: ハプロタイプフェージング: shapeit4
インピュテーション: minimac4
解析方法: ・SNP array:
遺伝子型決定: GenomeStudio
・WGS:
WA-MEM v0.7.13、GATK v3.8-0
PLINK2
バリアント数: 腸内微生物叢/KEGG (SNP array): 7,213,470 variants
血中代謝物 (WGS): 6,840,258 variants
加工データの種類: GWAS 要約統計量
表現型データの有無: あり
利用ポリシー: NBDC データ共有ポリシー (JGAP000001)