Table 1 Characteristics (such as tissue of origin, source database, disease type, sample size of each study and details about the platform technology used to generate the data) of the 23 data sets (17 cancer + 6 septic shock) included in the analysis. Study_code refers to the code assigned by the source database (either TCGA or GEO) to the data set. TCGA stands for The Cancer Genome Atlas. GEO stands for NCBI Gene Expression Omnibus. Paired control refers to adjacent normal tissue in the same cancer patient. Technology for transcriptome assay is either sequencing (RNA-seq) or hybridization-based microarray (Affymetrix)
Study_Code | Data source | Disease | Tissue | Number of samples | Paired control | Technology |
|---|---|---|---|---|---|---|
BLCA | TCGA | Cancer | Bladder | 38 | Yes | RNA-seq (Illumina) |
BRCA | TCGA | Cancer | Breast | 220 | Yes | RNA-seq (Illumina) |
CHOL | TCGA | Cancer | Gallbladder, liver and parts of biliary tract | 18 | Yes | RNA-seq (Illumina) |
COAD | TCGA | Cancer | Colon and rectosigmoid junction | 82 | Yes | RNA-seq (Illumina) |
ESCA | TCGA | Cancer | Esophagus | 16 | Yes | RNA-seq (Illumina) |
HNSC | TCGA | Cancer | Base of tongue, floor of mouth, gum, hypo- and oro-pharynx, larynx, etc. | 86 | Yes | RNA-seq (Illumina) |
KICH | TCGA | Cancer | Kidney | 48 | Yes | RNA-seq (Illumina) |
KIRC | TCGA | Cancer | Kidney | 144 | Yes | RNA-seq (Illumina) |
KIRP | TCGA | Cancer | Kidney | 64 | Yes | RNA-seq (Illumina) |
LIHC | TCGA | Cancer | Liver and intrahepatic bile ducts | 100 | Yes | RNA-seq (Illumina) |
LUAD | TCGA | Cancer | Bronchus and lung | 114 | Yes | RNA-seq (Illumina) |
LUSC | TCGA | Cancer | Bronchus and lung | 98 | Yes | RNA-seq (Illumina) |
PRAD | TCGA | Cancer | Prostate gland | 104 | Yes | RNA-seq (Illumina) |
READ | TCGA | Cancer | Rectum rectosigmoid junction | 20 | Yes | RNA-seq (Illumina) |
STAD | TCGA | Cancer | Stomach | 62 | Yes | RNA-seq (Illumina) |
THCA | TCGA | Cancer | Thyroid gland | 116 | Yes | RNA-seq (Illumina) |
UCEC | TCGA | Cancer | Corpus uteri | 46 | Yes | RNA-seq (Illumina) |
GSE4607 | GEO | Septic Shock | Whole Blood | 84 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |
GSE8121 | GEO | Septic Shock | Whole Blood | 75 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |
GSE9692 | GEO | Septic Shock | Whole Blood | 45 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |
GSE13904 | GEO | Septic Shock | Whole Blood | 124 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |
GSE26378 | GEO | Septic Shock | Whole Blood | 103 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |
GSE26440 | GEO | Septic Shock | Whole Blood | 130 | No | Microarray (Affymetrix HGU 133 Plus 2.0) |