在经过 UCSC 处理 GTEx 中,Brain 分为 13 个组织 1148 个样本,但 GEPIA2 将他们分成了由 207+945=1152 两组,那么哪些是可以作为 LGG 或 GBM 的对照的呢? 从TCGA 中下载 LGG 的临床数据,可得都来源于额叶、顶叶、颞叶和枕叶四个脑叶,也就是说都来源于大脑 (Cerebrum), 因此我们要找的也是 Cerebrum. GT...
第三,最初使用突变(SKCM)或DNA甲基化(LGGGBM)对亚型进行分类的癌症队列,其顶级模型往往会选择相应数据类型的特征(图3B)。 第四,使用全基因组特征的汇总统计数据(如突变负荷、染色体不稳定性以及CpG岛甲基化表型(CIMP)定义的亚型(例如GEA和COADREAD),在我们使用的以单个基因为中心的特征训练方法中难以捕捉,因此生成...
coldata <- data.frame( row.names = colnames(counts), group = factor(ifelse(colnames(counts) %in% gbm.exp$barcode, "gbm", "lgg")) ) # 构造 DESeqDataSet 数据结构 dds <- DESeqDataSetFromMatrix( countData = counts, colData = coldata, design = ~ group ) # 差异分析 dds <- DESeq(dds...
the overall size of TCGA dataset is approximately 3.87PB, and one single histological slide in svs format is of GB level, so do get hard drives of TB, better a NAS system as well as a blue-ray disc burning system If the size of the files to be downloaded is more than 5Gb, use of...
|TCGA-LGG |Brain Lower Grade Glioma |HCMI-CMDC |NCI Cancer Model Development for the Human Cancer Model Initiative |TCGA-BRCA |Breast Invasive Carcinoma |TARGET-RT |Rhabdoid Tumor |TARGET-CCSK |Clear Cell Sarcoma of the Kidney |TCGA-TGCT |Testicular Germ Cell Tumors ...
In a different TCGA dataset, the same significant, high-frequency nucleotide replacement is observed in 3 of 289 patients with lower grade glioma (LGG) (Figure 5, Supplementary table 7). Concerted deregulation of G-protein signaling and MAPK cascade stimulates melanogenesis Integrated systems biology...
# dry.run logical(1) Whether to return the dataset names before actual download (default TRUE) (accmae <- curatedTCGAData("ACC", c("CN*", "Mutation"), FALSE)) 下载后得到的是一个MultiAssayExperiment对象: A MultiAssayExperiment object of 3 listed ...
#' - TCGA-LGG #' - TCGA-LIHC #' - TCGA-LUAD #' - TCGA-LUSC #' - TCGA-MESO #' - TCGA-OV #' - TCGA-PAAD #' - TCGA-PCPG #' - TCGA-PRAD #' - TCGA-READ #' - TCGA-SARC #' - TCGA-SKCM #' - TCGA-STAD #' - TCGA-TGCT #' - TCGA-THCA #' - TCGA-THYM #' - ...
In a different TCGA dataset, the same significant, high-frequency nucleotide replacement is observed in 3 of 289 patients with lower grade glioma (LGG) (Figure 5, Supplementary table 7). Concerted deregulation of G-protein signaling and MAPK cascade stimulates melanogenesis Integrated systems biology...
髓 系 白 血 病 285151105200140 Acute Myeloid Leukemia(TCGA-LAML)急 性 髓 系 白 血 病 285151105200140 Adrenocortical Carcinoma(TCGA-ACC)肾 上 腺 皮 质 癌 180*** Bladder Urothelial Carcinoma(TCGA-BLCA)膀 胱 尿 路 上 皮 癌 814433437412440 Brain Lower Grade Glioma(TCGA-LGG)脑 低 级 别 胶...