{"id":"JGAD000492","research":"hum0201","url":"https://humandbs.dbcls.jp/dataset/JGAD000492","datePublished":"2021-11-30","dateModified":"2022-10-27","values":[{"key":"access-criteria","label":{"ja":"アクセス制限","en":"Access criteria"},"type":"vocabulary","terms":[{"code":"controlled-access-type-1","label":{"ja":"制限公開（Type I）","en":"Controlled-access (Type I)"}}]},{"key":"type-of-data","label":{"ja":"データの種類","en":"Type of data"},"type":"text","text":{"ja":"NGS（RNA-seq、ChIP-seq）","en":"NGS (RNA-seq, ChIP-seq)"}}],"experiments":[{"label":"RNA-seq","values":[{"key":"materials-and-participants","label":{"ja":"材料と対象者","en":"Materials and participants"},"type":"text","text":{"ja":"腫瘍性疾患：23＋4症例（35＋5検体）\n（腫瘍組織39検体および非腫瘍組織 [正常大腸上皮] 1検体より樹立したオルガノイド）\n小細胞肺がん（ICD10：C34）\n胆道がん（ICD10：C23, C24, C78）\n大腸がん（ICD10：C18-20）\n十二指腸がん（ICD10：C17）\n食道がん（ICD10：C15）\n胃がん（ICD10：C16, C78）\n肝がん（ICD10：C22）\n膵がん（ICD10：C25）","en":"Neoplastic disease: 23 + 4 cases (35+ 5 samples)\nSmall cell lung cancer (ICD10: C34)\nBiliary tract cancer (ICD10: C23, C24, C78)\nColon cancer (ICD10: C18-20)\nDuodenal cancer (ICD10: C17)\nEsophageal cancer (ICD10: C15)\nStomach cancer (ICD10: C16, C78)\nLiver cancer (ICD10: C22)\nPancreatic cancer (ICD10: C25)"}},{"key":"disease","label":{"ja":"疾患","en":"Disease"},"type":"disease","diseases":[{"terms":[{"code":"C34","label":{"ja":"気管支及び肺の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of bronchus and lung"}}],"name":{"ja":"小細胞肺がん","en":"Small cell lung cancer"}},{"terms":[{"code":"C23","label":{"ja":"胆のう＜嚢＞の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of gallbladder"}},{"code":"C24","label":{"ja":"その他及び部位不明の胆道の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of other and unspecified parts of biliary tract"}},{"code":"C78","label":{"ja":"呼吸器及び消化器の続発性悪性新生物＜腫瘍＞","en":"Secondary malignant neoplasm of respiratory and digestive organs"}}],"name":{"ja":"胆道がん","en":"Biliary tract cancer"}},{"terms":[{"code":"C18","label":{"ja":"結腸の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of colon"}},{"code":"C19","label":{"ja":"直腸S状結腸移行部の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of rectosigmoid junction"}},{"code":"C20","label":{"ja":"直腸の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of rectum"}}],"name":{"ja":"大腸がん","en":"Colon cancer"}},{"terms":[{"code":"C17","label":{"ja":"小腸の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of small intestine"}}],"name":{"ja":"十二指腸がん","en":"Duodenal cancer"}},{"terms":[{"code":"C15","label":{"ja":"食道の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of oesophagus"}}],"name":{"ja":"食道がん","en":"Esophageal cancer"}},{"terms":[{"code":"C16","label":{"ja":"胃の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of stomach"}},{"code":"C78","label":{"ja":"呼吸器及び消化器の続発性悪性新生物＜腫瘍＞","en":"Secondary malignant neoplasm of respiratory and digestive organs"}}],"name":{"ja":"胃がん","en":"Stomach cancer"}},{"terms":[{"code":"C22","label":{"ja":"肝及び肝内胆管の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of liver and intrahepatic bile ducts"}}],"name":{"ja":"肝がん","en":"Liver cancer"}},{"terms":[{"code":"C25","label":{"ja":"膵の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of pancreas"}}],"name":{"ja":"膵がん","en":"Pancreatic cancer"}}]},{"key":"health-status","label":{"ja":"健康状態","en":"Health status"},"type":"vocabulary","terms":[{"code":"mixed","label":{"ja":"混在","en":"Mixed"}}]},{"key":"subject-count","label":{"ja":"対象者数","en":"Subject count"},"type":"number","numbers":[{"value":40,"unit":null,"high":null}]},{"key":"subject-count-type","label":{"ja":"対象者数の数え方","en":"Counted as"},"type":"vocabulary","terms":[{"code":"sample","label":{"ja":"検体数","en":"Sample"}}]},{"key":"sample-description","label":{"ja":"試料説明","en":"Sample description"},"type":"text","text":{"ja":"腫瘍組織および非腫瘍組織（正常大腸上皮）より樹立したオルガノイドから抽出したRNA\nBET阻害剤を添加した大腸腫瘍組織および非腫瘍組織（正常大腸上皮）由来のオルガノイドから抽出したRNA","en":"RNAs extracted from organoids established from tumor tissues and a normal epithelial tissue of the patients\nRNAs extracted from organoids with BET bromodomain inhibitor established from tumor tissues and a normal epithelial tissue of colon cancer patients"}},{"key":"tissue","label":{"ja":"組織","en":"Tissue"},"type":"vocabulary","terms":[{"code":"organoid","label":{"ja":"オルガノイド","en":"Organoid"}},{"code":"colon","label":{"ja":"結腸","en":"Colon"}}]},{"key":"is-tumor","label":{"ja":"腫瘍 / 非腫瘍","en":"Tumor / normal"},"type":"vocabulary","terms":[{"code":"mixed","label":{"ja":"混在","en":"Mixed"}}]},{"key":"sample-provider","label":{"ja":"試料の入手元","en":"Sample provider"},"type":"text","text":{"ja":null,"en":null}},{"key":"experimental-method","label":{"ja":"実験方法","en":"Experimental method"},"type":"vocabulary","terms":[{"code":"rna-seq","label":{"en":"RNA-seq"}}]},{"key":"targets","label":{"ja":"測定対象","en":"Target"},"type":"text","text":{"ja":null,"en":null}},{"key":"reagents","label":{"ja":"試薬キット","en":"Reagent kit"},"type":"vocabulary","terms":[{"code":"truseq-rna-library-prep-kit","label":{"en":"TruSeq RNA Library Prep Kit"}},{"code":"truseq-stranded-mrna-library-prep-kit","label":{"en":"TruSeq Stranded mRNA Library Prep Kit"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"熱処理","en":"Heat treatment"}},{"key":"platform","label":{"ja":"プラットフォーム","en":"Platform"},"type":"vocabulary","terms":[{"code":"illumina-hiseq-2500","label":{"en":"Illumina HiSeq 2500"}},{"code":"illumina-hiseq-x","label":{"en":"Illumina HiSeq X"}},{"code":"illumina-novaseq-6000","label":{"en":"Illumina NovaSeq 6000"}}]},{"key":"read-type","label":{"ja":"リードタイプ","en":"Read type"},"type":"vocabulary","terms":[{"code":"paired-end","label":{"ja":"ペアエンド","en":"Paired-end"}}]},{"key":"read-length","label":{"ja":"リード長","en":"Read length"},"type":"number","numbers":[{"value":250,"unit":"bp","high":null},{"value":150,"unit":"bp","high":null}]},{"key":"policies","label":{"ja":"利用ポリシー","en":"Data use policy"},"type":"vocabulary","terms":[{"code":"nbdc-data-sharing-policy-jgap000001","label":{"ja":"NBDC データ共有ポリシー (JGAP000001)","en":"NBDC data sharing policy (JGAP000001)"}}]}]},{"label":"ChIP-seq","values":[{"key":"materials-and-participants","label":{"ja":"材料と対象者","en":"Materials and participants"},"type":"text","text":{"ja":"腫瘍性疾患：4症例（5検体）\n（腫瘍組織4検体および非腫瘍組織 [正常大腸上皮] 1検体より樹立したオルガノイド）\n大腸がん（ICD10：C18）","en":"Neoplastic disease: 4 cases (5 samples)\nColon cancer (ICD10: C18)"}},{"key":"disease","label":{"ja":"疾患","en":"Disease"},"type":"disease","diseases":[{"terms":[{"code":"C18","label":{"ja":"結腸の悪性新生物＜腫瘍＞","en":"Malignant neoplasm of colon"}}],"name":{"ja":"大腸がん","en":"Colon cancer"}}]},{"key":"health-status","label":{"ja":"健康状態","en":"Health status"},"type":"vocabulary","terms":[{"code":"mixed","label":{"ja":"混在","en":"Mixed"}}]},{"key":"subject-count","label":{"ja":"対象者数","en":"Subject count"},"type":"number","numbers":[{"value":5,"unit":null,"high":null}]},{"key":"subject-count-type","label":{"ja":"対象者数の数え方","en":"Counted as"},"type":"vocabulary","terms":[{"code":"sample","label":{"ja":"検体数","en":"Sample"}}]},{"key":"sample-description","label":{"ja":"試料説明","en":"Sample description"},"type":"text","text":{"ja":"腫瘍組織非腫瘍組織（正常大腸上皮）より樹立したオルガノイドから抽出したDNAに対し、抗ヒストン抗体（H3K27Ac）を用いて免疫沈降","en":"DNAs extracted from organoids derived from colon cancer tissues and a normal epithelial tissue of the patients, and immunoprecipitated with an anti-histone antibody (H3K27Ac)"}},{"key":"tissue","label":{"ja":"組織","en":"Tissue"},"type":"vocabulary","terms":[{"code":"organoid","label":{"ja":"オルガノイド","en":"Organoid"}},{"code":"colon","label":{"ja":"結腸","en":"Colon"}}]},{"key":"is-tumor","label":{"ja":"腫瘍 / 非腫瘍","en":"Tumor / normal"},"type":"vocabulary","terms":[{"code":"mixed","label":{"ja":"混在","en":"Mixed"}}]},{"key":"sample-provider","label":{"ja":"試料の入手元","en":"Sample provider"},"type":"text","text":{"ja":null,"en":null}},{"key":"experimental-method","label":{"ja":"実験方法","en":"Experimental method"},"type":"vocabulary","terms":[{"code":"chip-seq","label":{"en":"ChIP-seq"}}]},{"key":"targets","label":{"ja":"測定対象","en":"Target"},"type":"text","text":{"ja":null,"en":null}},{"key":"reagents","label":{"ja":"試薬キット","en":"Reagent kit"},"type":"vocabulary","terms":[{"code":"illumina-tagment-dna-tde1-enzyme-and-buffer-kits","label":{"en":"Illumina Tagment DNA TDE1 Enzyme and Buffer Kits"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"超音波断片化（Bioruptor Ⅱ）","en":"Ultrasonic fragmentation (Bioruptor Ⅱ)"}},{"key":"platform","label":{"ja":"プラットフォーム","en":"Platform"},"type":"vocabulary","terms":[{"code":"illumina-hiseq-x","label":{"en":"Illumina HiSeq X"}}]},{"key":"read-type","label":{"ja":"リードタイプ","en":"Read type"},"type":"vocabulary","terms":[{"code":"paired-end","label":{"ja":"ペアエンド","en":"Paired-end"}}]},{"key":"read-length","label":{"ja":"リード長","en":"Read length"},"type":"number","numbers":[{"value":150,"unit":"bp","high":null}]},{"key":"policies","label":{"ja":"利用ポリシー","en":"Data use policy"},"type":"vocabulary","terms":[{"code":"nbdc-data-sharing-policy-jgap000001","label":{"ja":"NBDC データ共有ポリシー (JGAP000001)","en":"NBDC data sharing policy (JGAP000001)"}}]}]}],"dataVolume":207529422066,"fileFormats":[{"code":"fastq","label":{"en":"FASTQ"}}]}