{"id":"E-GEAD-1251","research":"hum0197","url":"https://humandbs.dbcls.jp/dataset/E-GEAD-1251","datePublished":"2026-08-03","dateModified":"2026-08-03","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":"多発性硬化症のscRNA-seqの統合データ","en":"Integrated single-cell object data of PBMCs from 20 MS patients"}}],"experiments":[{"label":"scRNA-seq","values":[{"key":"materials-and-participants","label":{"ja":"材料と対象者","en":"Materials and participants"},"type":"text","text":{"ja":"多発性硬化症（MS）（ICD10：G35）：20症例","en":"MS (ICD10: G35): 20 cases"}},{"key":"disease","label":{"ja":"疾患","en":"Disease"},"type":"disease","diseases":[{"terms":[{"code":"G35","label":{"ja":"多発性硬化症","en":"Multiple sclerosis"}}],"name":{"ja":"多発性硬化症（MS）","en":"MS"}}]},{"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":"PBMCから抽出したRNA","en":"RNAs extracted from PBMC"}},{"key":"tissue","label":{"ja":"組織","en":"Tissue"},"type":"vocabulary","terms":[{"code":"peripheral-blood","label":{"ja":"末梢血","en":"Peripheral blood"}},{"code":"pbmc","label":{"ja":"末梢血単核球 (PBMC)","en":"PBMC"}}]},{"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-v1-1","label":{"en":"Chromium Next GEM Single Cell 5' v1.1"}},{"code":"chromium-next-gem-chip-g-single-cell-kit","label":{"en":"Chromium Next GEM Chip G Single Cell Kit"}},{"code":"single-index-kit-t-set-a","label":{"en":"Single Index Kit T Set A"}}]},{"key":"fragmentation","label":{"ja":"断片化","en":"Fragmentation"},"type":"text","text":{"ja":"酵素反応","en":"Enzymatic fragmentation"}},{"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":90,"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":"STAR","en":"STAR"}},{"key":"filtering","label":{"ja":"QC・フィルタリング","en":"QC and filtering"},"type":"text","text":{"ja":"We processed them with the remove-background function of CellBender (v0.1.0) to remove cell-free ambient RNAs in the droplets and call cells. We removed cells that had fewer than 500 UMIs, fewer than 200 feature counts in each sample, greater than 10% of reads from mitochondrial genes, or greater than 10% of reads from hemoglobin genes. Additionally, putative doublets were removed using Scrublet (v0.2.3) and scds (v1.18.0) for each sample.","en":"We processed them with the remove-background function of CellBender (v0.1.0) to remove cell-free ambient RNAs in the droplets and call cells. We removed cells that had fewer than 500 UMIs, fewer than 200 feature counts in each sample, greater than 10% of reads from mitochondrial genes, or greater than 10% of reads from hemoglobin genes. Additionally, putative doublets were removed using Scrublet (v0.2.3) and scds (v1.18.0) for each sample."}},{"key":"analysis-methods","label":{"ja":"解析方法","en":"Analysis method"},"type":"text","text":{"ja":"Cell Ranger v7","en":"Cell Ranger v7"}},{"key":"gene-number","label":{"ja":"遺伝子数","en":"Gene count"},"type":"number","numbers":[{"value":36601,"unit":null,"high":null,"suffix":{"ja":" genes","en":" genes"}}]},{"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":722268847,"fileFormats":[{"code":"txt","label":{"en":"TXT"}},{"code":"h5ad","label":{"en":"H5AD"}}]}