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

301–400 / 732 件

ファイル名	ラベル	サイズ
metabo_P_0150_QCed_sumstats.tsv.gz	アシルカルニチン(20:1)-2	319 MB
metabo_P_0151_QCed_sumstats.tsv.gz	アシルカルニチン(20:0)	318 MB
metabo_P_0157_QCed_sumstats.tsv.gz	α-トコフェロールアセテート	318 MB
metabo_P_0167_QCed_sumstats.tsv.gz	アスタキサンチン	319 MB
metabo_P_0170_QCed_sumstats.tsv.gz	トリラウリン-2	319 MB
metabo_P_0171_QCed_sumstats.tsv.gz	1,2-ジパルミトイルグリセロ-3-ホスホエタノールアミン	318 MB
metabo_P_0172_QCed_sumstats.tsv.gz	スフィンゴミエリン(d18:1/16:0)	318 MB
metabo_P_0174_QCed_sumstats.tsv.gz	チロキシン	318 MB
metabo_P_0175_QCed_sumstats.tsv.gz	1,2-ジステアロイルグリセロ-3-ホスホコリン-1	318 MB
microbiome_L7_species_Absiella_dolichum_QCed_sumstats.tsv.gz	Absiella_dolichum	523 MB
microbiome_L7_species_Absiella_sp_QCed_sumstats.tsv.gz	Absiella_sp	521 MB
microbiome_L7_species_Acetivibrio_sp_QCed_sumstats.tsv.gz	Acetivibrio_sp	522 MB
microbiome_L7_species_Acidaminococcus_fermentans_QCed_sumstats.tsv.gz	Acidaminococcus_fermentans	526 MB
microbiome_L7_species_Acidaminococcus_intestini_QCed_sumstats.tsv.gz	Acidaminococcus_intestini	526 MB
microbiome_L7_species_Acidaminococcus_massiliensis_QCed_sumstats.tsv.gz	Acidaminococcus_massiliensis	526 MB
microbiome_L7_species_Acidaminococcus_sp_QCed_sumstats.tsv.gz	Acidaminococcus_sp	524 MB
microbiome_L7_species_Acinetobacter_baumannii_QCed_sumstats.tsv.gz	Acinetobacter_baumannii	525 MB
microbiome_L7_species_Acinetobacter_sp_QCed_sumstats.tsv.gz	Acinetobacter_sp	522 MB
microbiome_L7_species_Actinobaculum_sp_QCed_sumstats.tsv.gz	Actinobaculum_sp	522 MB
microbiome_L7_species_Actinomyces_dentalis_QCed_sumstats.tsv.gz	Actinomyces_dentalis	525 MB
microbiome_L7_species_Actinomyces_graevenitzii_QCed_sumstats.tsv.gz	Actinomyces_graevenitzii	525 MB
microbiome_L7_species_Actinomyces_naeslundii_QCed_sumstats.tsv.gz	Actinomyces_naeslundii	525 MB
microbiome_L7_species_Actinomyces_odontolyticus_QCed_sumstats.tsv.gz	Actinomyces_odontolyticus	526 MB
microbiome_L7_species_Actinomyces_oris_QCed_sumstats.tsv.gz	Actinomyces_oris	522 MB
microbiome_L7_species_Actinomyces_sp_QCed_sumstats.tsv.gz	Actinomyces_sp	522 MB
microbiome_L7_species_Actinomyces_viscosus_QCed_sumstats.tsv.gz	Actinomyces_viscosus	525 MB
microbiome_L7_species_Adlercreutzia_equolifaciens_QCed_sumstats.tsv.gz	Adlercreutzia_equolifaciens	526 MB
microbiome_L7_species_Agathobaculum_butyriciproducens_QCed_sumstats.tsv.gz	Agathobaculum_butyriciproducens	526 MB
microbiome_L7_species_Agathobaculum_desmolans_QCed_sumstats.tsv.gz	Agathobaculum_desmolans	525 MB
microbiome_L7_species_Akkermansia_muciniphila_QCed_sumstats.tsv.gz	Akkermansia_muciniphila	525 MB
microbiome_L7_species_Akkermansia_sp_QCed_sumstats.tsv.gz	Akkermansia_sp	522 MB
microbiome_L7_species_Alistipes_finegoldii_QCed_sumstats.tsv.gz	Alistipes_finegoldii	524 MB
microbiome_L7_species_Alistipes_ihumii_QCed_sumstats.tsv.gz	Alistipes_ihumii	523 MB
microbiome_L7_species_Alistipes_indistinctus_QCed_sumstats.tsv.gz	Alistipes_indistinctus	525 MB
microbiome_L7_species_Alistipes_obesi_QCed_sumstats.tsv.gz	Alistipes_obesi	522 MB
microbiome_L7_species_Alistipes_onderdonkii_QCed_sumstats.tsv.gz	Alistipes_onderdonkii	525 MB
microbiome_L7_species_Alistipes_putredinis_QCed_sumstats.tsv.gz	Alistipes_putredinis	524 MB
microbiome_L7_species_Alistipes_senegalensis_QCed_sumstats.tsv.gz	Alistipes_senegalensis	525 MB
microbiome_L7_species_Alistipes_shahii_QCed_sumstats.tsv.gz	Alistipes_shahii	522 MB
microbiome_L7_species_Alistipes_sp_QCed_sumstats.tsv.gz	Alistipes_sp	521 MB
microbiome_L7_species_Alistipes_timonensis_QCed_sumstats.tsv.gz	Alistipes_timonensis	525 MB
microbiome_L7_species_Alloscardovia_omnicolens_QCed_sumstats.tsv.gz	Alloscardovia_omnicolens	525 MB
microbiome_L7_species_Anaerobutyricum_hallii_QCed_sumstats.tsv.gz	Anaerobutyricum_hallii	525 MB
microbiome_L7_species_Anaerofustis_stercorihominis_QCed_sumstats.tsv.gz	Anaerofustis_stercorihominis	526 MB
microbiome_L7_species_Anaeroglobus_geminatus_QCed_sumstats.tsv.gz	Anaeroglobus_geminatus	525 MB
microbiome_L7_species_Anaerostipes_caccae_QCed_sumstats.tsv.gz	Anaerostipes_caccae	524 MB
microbiome_L7_species_Anaerostipes_hadrus_QCed_sumstats.tsv.gz	Anaerostipes_hadrus	525 MB
microbiome_L7_species_Anaerostipes_sp_QCed_sumstats.tsv.gz	Anaerostipes_sp	522 MB
microbiome_L7_species_Anaerotignum_lactatifermentans_QCed_sumstats.tsv.gz	Anaerotignum_lactatifermentans	527 MB
microbiome_L7_species_Anaerotruncus_colihominis_QCed_sumstats.tsv.gz	Anaerotruncus_colihominis	526 MB
microbiome_L7_species_Anaerotruncus_sp_QCed_sumstats.tsv.gz	Anaerotruncus_sp	522 MB
microbiome_L7_species_Anaerovorax_sp_QCed_sumstats.tsv.gz	Anaerovorax_sp	522 MB
microbiome_L7_species_Asaccharobacter_celatus_QCed_sumstats.tsv.gz	Asaccharobacter_celatus	525 MB
microbiome_L7_species_Atopobium_sp_QCed_sumstats.tsv.gz	Atopobium_sp	521 MB
microbiome_L7_species_Azospirillum_sp_QCed_sumstats.tsv.gz	Azospirillum_sp	522 MB
microbiome_L7_species_Bacillus_cereus_QCed_sumstats.tsv.gz	Bacillus_cereus	522 MB
microbiome_L7_species_Bacillus_sp_QCed_sumstats.tsv.gz	Bacillus_sp	521 MB
microbiome_L7_species_Bacillus_subtilis_QCed_sumstats.tsv.gz	Bacillus_subtilis	523 MB
microbiome_L7_species_Bacteroides_acidifaciens_QCed_sumstats.tsv.gz	Bacteroides_acidifaciens	525 MB
microbiome_L7_species_Bacteroides_barnesiae_QCed_sumstats.tsv.gz	Bacteroides_barnesiae	525 MB
microbiome_L7_species_Bacteroides_caccae_QCed_sumstats.tsv.gz	Bacteroides_caccae	524 MB
microbiome_L7_species_Bacteroides_cellulosilyticus_QCed_sumstats.tsv.gz	Bacteroides_cellulosilyticus	526 MB
microbiome_L7_species_Bacteroides_clarus_QCed_sumstats.tsv.gz	Bacteroides_clarus	524 MB
microbiome_L7_species_Bacteroides_coprocola_QCed_sumstats.tsv.gz	Bacteroides_coprocola	525 MB
microbiome_L7_species_Bacteroides_coprophilus_QCed_sumstats.tsv.gz	Bacteroides_coprophilus	525 MB
microbiome_L7_species_Bacteroides_dorei_QCed_sumstats.tsv.gz	Bacteroides_dorei	523 MB
microbiome_L7_species_Bacteroides_eggerthii_QCed_sumstats.tsv.gz	Bacteroides_eggerthii	525 MB
microbiome_L7_species_Bacteroides_faecichinchillae_QCed_sumstats.tsv.gz	Bacteroides_faecichinchillae	526 MB
microbiome_L7_species_Bacteroides_faecis_QCed_sumstats.tsv.gz	Bacteroides_faecis	524 MB
microbiome_L7_species_Bacteroides_finegoldii_QCed_sumstats.tsv.gz	Bacteroides_finegoldii	525 MB
microbiome_L7_species_Bacteroides_fluxus_QCed_sumstats.tsv.gz	Bacteroides_fluxus	524 MB
microbiome_L7_species_Bacteroides_fragilis_QCed_sumstats.tsv.gz	Bacteroides_fragilis	524 MB
microbiome_L7_species_Bacteroides_gallinarum_QCed_sumstats.tsv.gz	Bacteroides_gallinarum	525 MB
microbiome_L7_species_Bacteroides_intestinalis_QCed_sumstats.tsv.gz	Bacteroides_intestinalis	525 MB
microbiome_L7_species_Bacteroides_massiliensis_QCed_sumstats.tsv.gz	Bacteroides_massiliensis	525 MB
microbiome_L7_species_Bacteroides_nordii_QCed_sumstats.tsv.gz	Bacteroides_nordii	524 MB
microbiome_L7_species_Bacteroides_oleiciplenus_QCed_sumstats.tsv.gz	Bacteroides_oleiciplenus	526 MB
microbiome_L7_species_Bacteroides_ovatus_QCed_sumstats.tsv.gz	Bacteroides_ovatus	524 MB
microbiome_L7_species_Bacteroides_pectinophilus_QCed_sumstats.tsv.gz	Bacteroides_pectinophilus	526 MB
microbiome_L7_species_Bacteroides_plebeius_QCed_sumstats.tsv.gz	Bacteroides_plebeius	524 MB
microbiome_L7_species_Bacteroides_pyogenes_QCed_sumstats.tsv.gz	Bacteroides_pyogenes	525 MB
microbiome_L7_species_Bacteroides_rodentium_QCed_sumstats.tsv.gz	Bacteroides_rodentium	525 MB
microbiome_L7_species_Bacteroides_salanitronis_QCed_sumstats.tsv.gz	Bacteroides_salanitronis	525 MB
microbiome_L7_species_Bacteroides_salyersiae_QCed_sumstats.tsv.gz	Bacteroides_salyersiae	525 MB
microbiome_L7_species_Bacteroides_sartorii_QCed_sumstats.tsv.gz	Bacteroides_sartorii	524 MB
microbiome_L7_species_Bacteroides_sp_QCed_sumstats.tsv.gz	Bacteroides_sp	522 MB
microbiome_L7_species_Bacteroides_stercorirosoris_QCed_sumstats.tsv.gz	Bacteroides_stercorirosoris	526 MB
microbiome_L7_species_Bacteroides_stercoris_QCed_sumstats.tsv.gz	Bacteroides_stercoris	525 MB
microbiome_L7_species_Bacteroides_thetaiotaomicron_QCed_sumstats.tsv.gz	Bacteroides_thetaiotaomicron	526 MB
microbiome_L7_species_Bacteroides_timonensis_QCed_sumstats.tsv.gz	Bacteroides_timonensis	525 MB
microbiome_L7_species_Bacteroides_uniformis_QCed_sumstats.tsv.gz	Bacteroides_uniformis	525 MB
microbiome_L7_species_Bacteroides_vulgatus_QCed_sumstats.tsv.gz	Bacteroides_vulgatus	524 MB
microbiome_L7_species_Bacteroides_xylanisolvens_QCed_sumstats.tsv.gz	Bacteroides_xylanisolvens	526 MB
microbiome_L7_species_Bacteroidetes_bacterium_QCed_sumstats.tsv.gz	Bacteroidetes_bacterium	525 MB
microbiome_L7_species_Barnesiella_intestinihominis_QCed_sumstats.tsv.gz	Barnesiella_intestinihominis	526 MB
microbiome_L7_species_Barnesiella_sp_QCed_sumstats.tsv.gz	Barnesiella_sp	522 MB
microbiome_L7_species_Bifidobacterium_adolescentis_QCed_sumstats.tsv.gz	Bifidobacterium_adolescentis	526 MB
microbiome_L7_species_Bifidobacterium_angulatum_QCed_sumstats.tsv.gz	Bifidobacterium_angulatum	526 MB
microbiome_L7_species_Bifidobacterium_animalis_QCed_sumstats.tsv.gz	Bifidobacterium_animalis	525 MB
microbiome_L7_species_Bifidobacterium_bifidum_QCed_sumstats.tsv.gz	Bifidobacterium_bifidum	525 MB

301–400 / 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)