LinkedOmics
    Analyzing multi-omics data within and across 32 cancer types

Data Download Portal

<- Explore LinkedOmics

Datasets for Skin Cutaneous Melanoma (TCGA-SKCM)

OMICS Dataset Link Description Level Unit Samples Atrributes File type
Clinical Download Clinical annotation Clinical Phenotype 470 12 tsi
Methylation (CpG-site level, HM450K) Download Methylation data of tumor samples at CpG-site level (Beta values, Illumina HM450K platform) CpG Beta Values (Val-0.5) 105 335645 cct
Methylation (Gene level, HM450K) Download Methylation data of tumor samples at Gene level (Beta values, Illumina HM450K platform) gene Beta Values (Val-0.5) 105 20110 cct
miRNA (Gene level) Download miRNA expression for tumor samples (Normalized, RPM) miRgene Expression (RPM, Log2(Val+1)) 97 755 cct
Mutation (Gene level) Download Somatic mutations at gene level SNVs gene Mutation Status (MutSig2CV) 289 3897 cbt
Mutation (Site level) Download Somatic mutations at site level SNVs mutationsite Mutation Status (MutSig2CV) 289 333 cbt
RPPA (Analyte Level) Download Reverse phase protein array (RPPA) expression normalized (Analyte-level) analyte Expression (Signal) 92 189 cct
RPPA (Gene Level) Download Reverse phase protein array (RPPA) expression normalized (Gene-level) gene Expression (Signal) 92 155 cct
RNAseq (HiSeq, Gene level) Download RNAseq data normalized counts (Illumina HiSeq platform, Gene-level, Normalized log2 RPKM) gene Expression (RSEM, Log2(Val+1)) 103 19729 cct
SCNV (Focal level, log-ratio) Download Copy number change at the focal level, GISTIC2 log ratio focal Copy Number Change (GISTIC2, Log2ratio) 367 54 cct
SCNV (Focal level, Thresholded) Download Copy number change at the focal level, GISTIC2 thresholded focal Copy Number Change (GISTIC2, Log2ratio) 367 20 cgt
SCNV (Gene level, log-ratio) Download Copy number change at the gene level, GISTIC2 log ratio format gene Copy Number Change (GISTIC2, Log2ratio) 367 24776 cct
SCNV (Gene level, Thresholded) Download Copy number change at the gene level, GISTIC2 thresholded gene Copy Number Change (GISTIC2, Log2ratio) 367 24776 cgt

  • *tsi - Mixed data matrix file
  • *cct - continuous data matrix file
  • *cbt - binary data matrix file
  • *cgt - categorical data matrix file