{"id":"E-GEAD-883","research":"hum0442","url":"https://humandbs.dbcls.jp/dataset/E-GEAD-883","datePublished":"2024-12-06","dateModified":"2024-12-06","values":[{"key":"access-criteria","label":{"ja":"アクセス制限","en":"Access criteria"},"type":"vocabulary","terms":[{"code":"unrestricted-access","label":{"ja":"非制限公開","en":"Unrestricted-access"}}]},{"key":"type-of-data","label":{"ja":"データの種類","en":"Type of data"},"type":"text","text":{"ja":"NGS（RNA-seq）","en":"NGS (RNA-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":"進行・再発非小細胞肺がん（ICD10：C349）：20症例\n腫瘍組織（FFPE検体）：20検体","en":"advanced or recurrent non-small cell lung cancer (ICD10: C349) before administering anti-PD-1/PD-L1 antibody treatment: 20 cases\nFFPE tumor tissue: 20 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":"進行・再発非小細胞肺がん","en":"advanced or recurrent non-small cell 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":20,"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RNA","en":"RNAs extracted from tumor tissues"}},{"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":"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":"smart-seq-stranded-kit","label":{"en":"SMART-Seq Stranded Kit"}},{"code":"nextera-xt-dna-library-prep-kit","label":{"en":"Nextera XT DNA Library Prep Kit"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"Nextera XT DNA Library Prep Kit","en":"Nextera XT DNA Library Prep Kit"}},{"key":"platform","label":{"ja":"プラットフォーム","en":"Platform"},"type":"vocabulary","terms":[{"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":150,"unit":"bp","high":null}]},{"key":"reference-sequence","label":{"ja":"参照ゲノム","en":"Reference genome"},"type":"vocabulary","terms":[{"code":"grch38","label":{"en":"GRCh38"}},{"code":"grch37","label":{"en":"GRCh37"}}]},{"key":"mapping","label":{"ja":"マッピング","en":"Mapping"},"type":"text","text":{"ja":"The count data was mapped to the reference genome using STAR aligner for calculation.","en":"The count data was mapped to the reference genome using STAR aligner for calculation."}},{"key":"filtering","label":{"ja":"QC・フィルタリング","en":"QC and filtering"},"type":"text","text":{"ja":"Read count and TPM data calculated after adapter trimming of fastq files.","en":"Read count and TPM data calculated after adapter trimming of fastq files."}},{"key":"analysis-methods","label":{"ja":"解析方法","en":"Analysis method"},"type":"text","text":{"ja":"HTSeq","en":"HTSeq"}},{"key":"gene-number","label":{"ja":"遺伝子数","en":"Gene count"},"type":"number","numbers":[{"value":25559,"unit":null,"high":null,"prefix":{"ja":"カウントデータ: ","en":"Count data: "}},{"value":14222,"unit":null,"high":null,"prefix":{"ja":"TPMデータ: ","en":"TPM data: "}}]},{"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":2049963,"fileFormats":[{"code":"txt","label":{"en":"TXT"}},{"code":"csv","label":{"en":"CSV"}}]}