{"id":"JGAD001047","research":"hum0556","url":"https://humandbs.dbcls.jp/dataset/JGAD001047","datePublished":"2026-06-24","dateModified":"2026-06-24","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（ChIP-seq）","en":"NGS (ChIP-seq)"}}],"experiments":[{"label":"ChIP-seq","values":[{"key":"materials-and-participants","label":{"ja":"材料と対象者","en":"Materials and participants"},"type":"text","text":{"ja":"肺がん（ICD10：C349）：17症例\n腫瘍組織（FFPE）：24検体","en":"lung cancer (ICD10: C349): 17 cases\ntumor tissue: 24 samples (FFPE samples)"}},{"key":"disease","label":{"ja":"疾患","en":"Disease"},"type":"disease","diseases":[{"terms":[{"code":"C349","label":{"ja":"気管支又は肺，部位不明","en":"Malignant neoplasm: Bronchus or lung, unspecified"}}],"name":{"ja":"肺がん","en":"lung cancer"}}]},{"key":"health-status","label":{"ja":"健康状態","en":"Health status"},"type":"vocabulary","terms":[{"code":"affected","label":{"ja":"罹患","en":"Affected"}}]},{"key":"subject-count","label":{"ja":"対象者数","en":"Subject count"},"type":"number","numbers":[{"value":17,"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":"individual","label":{"ja":"人数","en":"Individual"}}]},{"key":"sample-description","label":{"ja":"試料説明","en":"Sample description"},"type":"text","text":{"ja":"腫瘍組織から抽出したDNAに対し、抗ヒストン抗体（H3K27ac）を用いて免疫沈降","en":"DNA extracted from tumor tissues was used for the library construction. Anti-histone antibody (H3K27ac) was used for immunoprecipitation."}},{"key":"is-tumor","label":{"ja":"腫瘍 / 非腫瘍","en":"Tumor / normal"},"type":"vocabulary","terms":[{"code":"tumor","label":{"ja":"腫瘍","en":"Tumor"}}]},{"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":"thruplex-dna-seq-kit","label":{"en":"ThruPLEX DNA-Seq Kit"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"超音波断片化（Bioruptor）","en":"Ultrasonic fragmentation (Bioruptor)"}},{"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"}}]},{"key":"read-type","label":{"ja":"リードタイプ","en":"Read type"},"type":"vocabulary","terms":[{"code":"single-end","label":{"ja":"シングルエンド","en":"Single-end"}}]},{"key":"read-length","label":{"ja":"リード長","en":"Read length"},"type":"number","numbers":[{"value":50,"unit":"bp","high":null}]},{"key":"reference-sequence","label":{"ja":"参照ゲノム","en":"Reference genome"},"type":"vocabulary","terms":[{"code":"grch37","label":{"en":"GRCh37"}}]},{"key":"mapping","label":{"ja":"マッピング","en":"Mapping"},"type":"text","text":{"ja":"Bowtie2","en":"Bowtie2"}},{"key":"filtering","label":{"ja":"QC・フィルタリング","en":"QC and filtering"},"type":"text","text":{"ja":"・トリミング Trimmomatic（TruSeq3アダプター除去、4塩基平均クオリティ < 20で切断、リード長 < 36のリードを除去）\n・マッピング後フィルタ Samtools（MAPQ < 20のリードを除去）","en":"- Read trimming using Trimmomatic (removal of TruSeq3 adapters; trimming when the average quality score across a 4-base sliding window falls below 20; removal of reads shorter than 36 bp)\n- Post-mapping filtering using Samtools (removal of reads with MAPQ < 20)"}},{"key":"analysis-methods","label":{"ja":"解析方法","en":"Analysis method"},"type":"text","text":{"ja":"MACS2","en":"MACS2"}},{"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":37957449447,"fileFormats":[{"code":"fastq","label":{"en":"FASTQ"}},{"code":"bed","label":{"en":"BED"}}]}