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

601–700 / 732 件

ファイル名	ラベル	サイズ
microbiome_L7_species_Megamonas_hypermegale_QCed_sumstats.tsv.gz	Megamonas_hypermegale	525 MB
microbiome_L7_species_Megamonas_rupellensis_QCed_sumstats.tsv.gz	Megamonas_rupellensis	525 MB
microbiome_L7_species_Megasphaera_elsdenii_QCed_sumstats.tsv.gz	Megasphaera_elsdenii	525 MB
microbiome_L7_species_Megasphaera_massiliensis_QCed_sumstats.tsv.gz	Megasphaera_massiliensis	525 MB
microbiome_L7_species_Megasphaera_micronuciformis_QCed_sumstats.tsv.gz	Megasphaera_micronuciformis	526 MB
microbiome_L7_species_Megasphaera_sp_QCed_sumstats.tsv.gz	Megasphaera_sp	522 MB
microbiome_L7_species_Mitsuokella_jalaludinii_QCed_sumstats.tsv.gz	Mitsuokella_jalaludinii	525 MB
microbiome_L7_species_Mitsuokella_multacida_QCed_sumstats.tsv.gz	Mitsuokella_multacida	524 MB
microbiome_L7_species_Negativicoccus_succinicivorans_QCed_sumstats.tsv.gz	Negativicoccus_succinicivorans	526 MB
microbiome_L7_species_Neglecta_timonensis_QCed_sumstats.tsv.gz	Neglecta_timonensis	525 MB
microbiome_L7_species_Odoribacter_laneus_QCed_sumstats.tsv.gz	Odoribacter_laneus	524 MB
microbiome_L7_species_Odoribacter_sp_QCed_sumstats.tsv.gz	Odoribacter_sp	522 MB
microbiome_L7_species_Odoribacter_splanchnicus_QCed_sumstats.tsv.gz	Odoribacter_splanchnicus	526 MB
microbiome_L7_species_Olsenella_sp_QCed_sumstats.tsv.gz	Olsenella_sp	521 MB
microbiome_L7_species_Olsenella_uli_QCed_sumstats.tsv.gz	Olsenella_uli	522 MB
microbiome_L7_species_Oscillibacter_sp_QCed_sumstats.tsv.gz	Oscillibacter_sp	522 MB
microbiome_L7_species_Oscillospiraceae_bacterium_QCed_sumstats.tsv.gz	Oscillospiraceae_bacterium	526 MB
microbiome_L7_species_Oxalobacter_formigenes_QCed_sumstats.tsv.gz	Oxalobacter_formigenes	525 MB
microbiome_L7_species_Parabacteroides_distasonis_QCed_sumstats.tsv.gz	Parabacteroides_distasonis	527 MB
microbiome_L7_species_Parabacteroides_goldsteinii_QCed_sumstats.tsv.gz	Parabacteroides_goldsteinii	526 MB
microbiome_L7_species_Parabacteroides_gordonii_QCed_sumstats.tsv.gz	Parabacteroides_gordonii	526 MB
microbiome_L7_species_Parabacteroides_johnsonii_QCed_sumstats.tsv.gz	Parabacteroides_johnsonii	525 MB
microbiome_L7_species_Parabacteroides_merdae_QCed_sumstats.tsv.gz	Parabacteroides_merdae	525 MB
microbiome_L7_species_Parabacteroides_sp_QCed_sumstats.tsv.gz	Parabacteroides_sp	524 MB
microbiome_L7_species_Paraprevotella_clara_QCed_sumstats.tsv.gz	Paraprevotella_clara	525 MB
microbiome_L7_species_Paraprevotella_xylaniphila_QCed_sumstats.tsv.gz	Paraprevotella_xylaniphila	526 MB
microbiome_L7_species_Parasutterella_excrementihominis_QCed_sumstats.tsv.gz	Parasutterella_excrementihominis	527 MB
microbiome_L7_species_Pediococcus_acidilactici_QCed_sumstats.tsv.gz	Pediococcus_acidilactici	525 MB
microbiome_L7_species_Peptoanaerobacter_stomatis_QCed_sumstats.tsv.gz	Peptoanaerobacter_stomatis	526 MB
microbiome_L7_species_Peptoniphilus_sp_QCed_sumstats.tsv.gz	Peptoniphilus_sp	523 MB
microbiome_L7_species_Peptostreptococcaceae_bacterium_QCed_sumstats.tsv.gz	Peptostreptococcaceae_bacterium	527 MB
microbiome_L7_species_Peptostreptococcus_anaerobius_QCed_sumstats.tsv.gz	Peptostreptococcus_anaerobius	526 MB
microbiome_L7_species_Phascolarctobacterium_sp_QCed_sumstats.tsv.gz	Phascolarctobacterium_sp	526 MB
microbiome_L7_species_Phascolarctobacterium_succinatutens_QCed_sumstats.tsv.gz	Phascolarctobacterium_succinatutens	527 MB
microbiome_L7_species_Porphyromonas_somerae_QCed_sumstats.tsv.gz	Porphyromonas_somerae	525 MB
microbiome_L7_species_Porphyromonas_sp_QCed_sumstats.tsv.gz	Porphyromonas_sp	523 MB
microbiome_L7_species_Porphyromonas_uenonis_QCed_sumstats.tsv.gz	Porphyromonas_uenonis	525 MB
microbiome_L7_species_Prevotella_amnii_QCed_sumstats.tsv.gz	Prevotella_amnii	522 MB
microbiome_L7_species_Prevotella_bivia_QCed_sumstats.tsv.gz	Prevotella_bivia	523 MB
microbiome_L7_species_Prevotella_buccae_QCed_sumstats.tsv.gz	Prevotella_buccae	524 MB
microbiome_L7_species_Prevotella_buccalis_QCed_sumstats.tsv.gz	Prevotella_buccalis	524 MB
microbiome_L7_species_Prevotella_copri_QCed_sumstats.tsv.gz	Prevotella_copri	523 MB
microbiome_L7_species_Prevotella_corporis_QCed_sumstats.tsv.gz	Prevotella_corporis	524 MB
microbiome_L7_species_Prevotella_disiens_QCed_sumstats.tsv.gz	Prevotella_disiens	524 MB
microbiome_L7_species_Prevotella_marshii_QCed_sumstats.tsv.gz	Prevotella_marshii	524 MB
microbiome_L7_species_Prevotella_multiformis_QCed_sumstats.tsv.gz	Prevotella_multiformis	525 MB
microbiome_L7_species_Prevotella_nanceiensis_QCed_sumstats.tsv.gz	Prevotella_nanceiensis	525 MB
microbiome_L7_species_Prevotella_oris_QCed_sumstats.tsv.gz	Prevotella_oris	522 MB
microbiome_L7_species_Prevotella_sp_QCed_sumstats.tsv.gz	Prevotella_sp	522 MB
microbiome_L7_species_Prevotella_stercorea_QCed_sumstats.tsv.gz	Prevotella_stercorea	524 MB
microbiome_L7_species_Prevotella_timonensis_QCed_sumstats.tsv.gz	Prevotella_timonensis	525 MB
microbiome_L7_species_Proteobacteria_bacterium_QCed_sumstats.tsv.gz	Proteobacteria_bacterium	525 MB
microbiome_L7_species_Pseudoflavonifractor_capillosus_QCed_sumstats.tsv.gz	Pseudoflavonifractor_capillosus	527 MB
microbiome_L7_species_Pseudoflavonifractor_sp_QCed_sumstats.tsv.gz	Pseudoflavonifractor_sp	525 MB
microbiome_L7_species_Raoultella_ornithinolytica_QCed_sumstats.tsv.gz	Raoultella_ornithinolytica	526 MB
microbiome_L7_species_Raoultella_planticola_QCed_sumstats.tsv.gz	Raoultella_planticola	525 MB
microbiome_L7_species_Riemerella_columbina_QCed_sumstats.tsv.gz	Riemerella_columbina	525 MB
microbiome_L7_species_Rikenella_microfusus_QCed_sumstats.tsv.gz	Rikenella_microfusus	524 MB
microbiome_L7_species_Romboutsia_sp_QCed_sumstats.tsv.gz	Romboutsia_sp	521 MB
microbiome_L7_species_Roseburia_faecis_QCed_sumstats.tsv.gz	Roseburia_faecis	522 MB
microbiome_L7_species_Roseburia_hominis_QCed_sumstats.tsv.gz	Roseburia_hominis	523 MB
microbiome_L7_species_Roseburia_intestinalis_QCed_sumstats.tsv.gz	Roseburia_intestinalis	525 MB
microbiome_L7_species_Roseburia_inulinivorans_QCed_sumstats.tsv.gz	Roseburia_inulinivorans	525 MB
microbiome_L7_species_Roseburia_sp_QCed_sumstats.tsv.gz	Roseburia_sp	521 MB
microbiome_L7_species_Rothia_dentocariosa_QCed_sumstats.tsv.gz	Rothia_dentocariosa	525 MB
microbiome_L7_species_Rothia_mucilaginosa_QCed_sumstats.tsv.gz	Rothia_mucilaginosa	524 MB
microbiome_L7_species_Ruminiclostridium_sp_QCed_sumstats.tsv.gz	Ruminiclostridium_sp	525 MB
microbiome_L7_species_Ruminococcaceae_bacterium_QCed_sumstats.tsv.gz	Ruminococcaceae_bacterium	526 MB
microbiome_L7_species_Ruminococcus_bromii_QCed_sumstats.tsv.gz	Ruminococcus_bromii	525 MB
microbiome_L7_species_Ruminococcus_callidus_QCed_sumstats.tsv.gz	Ruminococcus_callidus	525 MB
microbiome_L7_species_Ruminococcus_champanellensis_QCed_sumstats.tsv.gz	Ruminococcus_champanellensis	527 MB
microbiome_L7_species_Ruminococcus_flavefaciens_QCed_sumstats.tsv.gz	Ruminococcus_flavefaciens	526 MB
microbiome_L7_species_Ruminococcus_gauvreauii_QCed_sumstats.tsv.gz	Ruminococcus_gauvreauii	525 MB
microbiome_L7_species_Ruminococcus_gnavus_QCed_sumstats.tsv.gz	Ruminococcus_gnavus	524 MB
microbiome_L7_species_Ruminococcus_lactaris_QCed_sumstats.tsv.gz	Ruminococcus_lactaris	525 MB
microbiome_L7_species_Ruminococcus_sp_QCed_sumstats.tsv.gz	Ruminococcus_sp	522 MB
microbiome_L7_species_Ruminococcus_torques_QCed_sumstats.tsv.gz	Ruminococcus_torques	525 MB
microbiome_L7_species_Sellimonas_intestinalis_QCed_sumstats.tsv.gz	Sellimonas_intestinalis	525 MB
microbiome_L7_species_Senegalimassilia_anaerobia_QCed_sumstats.tsv.gz	Senegalimassilia_anaerobia	526 MB
microbiome_L7_species_Slackia_piriformis_QCed_sumstats.tsv.gz	Slackia_piriformis	524 MB
microbiome_L7_species_Solobacterium_moorei_QCed_sumstats.tsv.gz	Solobacterium_moorei	525 MB
microbiome_L7_species_Staphylococcus_aureus_QCed_sumstats.tsv.gz	Staphylococcus_aureus	524 MB
microbiome_L7_species_Staphylococcus_sp_QCed_sumstats.tsv.gz	Staphylococcus_sp	523 MB
microbiome_L7_species_Stomatobaculum_longum_QCed_sumstats.tsv.gz	Stomatobaculum_longum	525 MB
microbiome_L7_species_Streptococcus_agalactiae_QCed_sumstats.tsv.gz	Streptococcus_agalactiae	525 MB
microbiome_L7_species_Streptococcus_anginosus_QCed_sumstats.tsv.gz	Streptococcus_anginosus	525 MB
microbiome_L7_species_Streptococcus_australis_QCed_sumstats.tsv.gz	Streptococcus_australis	525 MB
microbiome_L7_species_Streptococcus_constellatus_QCed_sumstats.tsv.gz	Streptococcus_constellatus	526 MB
microbiome_L7_species_Streptococcus_cristatus_QCed_sumstats.tsv.gz	Streptococcus_cristatus	525 MB
microbiome_L7_species_Streptococcus_equinus_QCed_sumstats.tsv.gz	Streptococcus_equinus	525 MB
microbiome_L7_species_Streptococcus_gallolyticus_QCed_sumstats.tsv.gz	Streptococcus_gallolyticus	526 MB
microbiome_L7_species_Streptococcus_gordonii_QCed_sumstats.tsv.gz	Streptococcus_gordonii	525 MB
microbiome_L7_species_Streptococcus_infantarius_QCed_sumstats.tsv.gz	Streptococcus_infantarius	526 MB
microbiome_L7_species_Streptococcus_infantis_QCed_sumstats.tsv.gz	Streptococcus_infantis	525 MB
microbiome_L7_species_Streptococcus_intermedius_QCed_sumstats.tsv.gz	Streptococcus_intermedius	526 MB
microbiome_L7_species_Streptococcus_lutetiensis_QCed_sumstats.tsv.gz	Streptococcus_lutetiensis	526 MB
microbiome_L7_species_Streptococcus_macedonicus_QCed_sumstats.tsv.gz	Streptococcus_macedonicus	526 MB
microbiome_L7_species_Streptococcus_mitis_QCed_sumstats.tsv.gz	Streptococcus_mitis	524 MB
microbiome_L7_species_Streptococcus_mutans_QCed_sumstats.tsv.gz	Streptococcus_mutans	525 MB
microbiome_L7_species_Streptococcus_oralis_QCed_sumstats.tsv.gz	Streptococcus_oralis	525 MB

601–700 / 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)