{"id":"JGAD000778","research":"hum0214","url":"https://humandbs.dbcls.jp/dataset/JGAD000778","datePublished":"2024-02-14","dateModified":"2024-02-14","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（scRNA-seq）解析によるカウントデータ","en":"NGS (scRNA-seq)"}}],"experiments":[{"label":{"ja":"scRNA-seq","en":"scRNA-seq"},"values":[{"key":"materials-and-participants","label":{"ja":"材料と対象者","en":"Materials and participants"},"type":"text","text":{"ja":"炎症性筋疾患（ICD10：M339、M332）：6症例\n筋生検検体：3症例3検体、気管支洗浄液検体：3症例3検体\n対照健常者：1名\n末梢血：1検体","en":"Idiopathic Inflammatory Myopathy (ICD10: M339, M332): 6 cases\nmuscle biopsy: 3 cases, 3 samples\nbronchoalveolar lavage fluid: 3 cases, 3 samples\n1 healthy control\nperipheral blood: 1 sample"}},{"key":"disease","label":{"ja":"疾患","en":"Disease"},"type":"disease","diseases":[{"terms":[{"code":"M339","label":{"ja":"皮膚（多発性）筋炎，詳細不明","en":"Dermatopolymyositis, unspecified"}},{"code":"M332","label":{"ja":"多発性筋炎","en":"Polymyositis"}}],"name":{"ja":"炎症性筋疾患","en":"Idiopathic Inflammatory Myopathy"}}]},{"key":"health-status","label":{"ja":"健康状態","en":"Health status"},"type":"vocabulary","terms":[{"code":"healthy","label":{"ja":"健常","en":"Healthy"}}]},{"key":"subject-count","label":{"ja":"対象者数","en":"Subject count"},"type":"number","numbers":[{"value":7,"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":"筋組織・気管支洗浄液より分取したCD45陽性細胞および末梢血より分取したCD4T細胞より抽出したtotal RNA","en":"Total RNAs extracted from CD4T cells for peripheral blood or CD45-positive cells for muscle tissue and bronchial lavage fluid"}},{"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":"scrna-seq","label":{"en":"scRNA-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":"chromium-next-gem-single-cell-5-v2","label":{"en":"Chromium Next GEM Single Cell 5' v2"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"Chromium Next GEM Single Cell 5' Reagent Kit v2 Dual Index","en":"Chromium Next GEM Single Cell 5' Reagent Kit v2 Dual Index"}},{"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"}}]},{"key":"mapping","label":{"ja":"マッピング","en":"Mapping"},"type":"text","text":{"ja":"Cell Ranger （GRCh38）","en":"Cell Ranger (GRCh38)"}},{"key":"filtering","label":{"ja":"QC・フィルタリング","en":"QC and filtering"},"type":"text","text":{"ja":"検出遺伝子数が、末梢血検体は500～3,500、筋生検検体は1,500～5,500、気管支洗浄液検体は1,000～5,500の細胞、およびミトコンドリア遺伝子のリードはいずれも5%未満である細胞を解析に使用した。","en":"For gene detection, a range of 500-3,500 genes from a peripheral blood sample, 1,500-5,500 genes from muscle biopsy samples, 1,000-5,500 genes from bronchoalveolar lavage fluid samples, and less than 5% of cells from mitochondrial genes were analyzed."}},{"key":"gene-number","label":{"ja":"遺伝子数","en":"Gene count"},"type":"number","numbers":[{"value":17441,"unit":null,"high":null,"prefix":{"ja":"末梢血: ","en":"Peripheral blood: "},"suffix":{"ja":" genes","en":" genes"}},{"value":18184,"unit":null,"high":null,"prefix":{"ja":"筋生検: ","en":"Muscle biopsy: "},"suffix":{"ja":" genes","en":" genes"}},{"value":20314,"unit":null,"high":null,"prefix":{"ja":"気管支洗浄液: ","en":"Bronchoalveolar lavage fluid: "},"suffix":{"ja":" genes","en":" genes"}}]},{"key":"processed-data-type","label":{"ja":"加工データの種類","en":"Processed data type"},"type":"vocabulary","terms":[{"code":"count-data","label":{"ja":"カウントデータ","en":"Count 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":40155374,"fileFormats":[{"code":"csv","label":{"en":"CSV"}}]}