Abstract
Cell cycle progression score as a predictive biomarker for overall survival in patients with adrenocortical carcinoma
Highlights
The score is calculated upon the relative expression levels of 31 selected CCP genes normalized to 15 housekeeper genes using quantitative RT-PCR
Single sample gene set enrichment analysis[4] was performed to quantify CCP along with some other cancer-related hallmarks such as “epithelial–mesenchymal transition (EMT),” “angiogenesis,” and “hypoxia,” based on corresponding gene sets retrieved from Molecular Signatures Database (MSigDB)[5] and RSEM-normalized RNA-seq data of 79 adrenocortical carcinoma (ACC) samples from The Cancer Genome Atlas (TCGA).[6]
The overview of relationships between CCPS and clinicopathological features demonstrated that CCPS was significantly correlated with factors considered to be associated with a more aggressive behavior such as heavy mutation burden, advanced tumor stages and worse clinical outcomes (Figure 1C, left panel)
Summary
The score is calculated upon the relative expression levels of 31 selected CCP genes normalized to 15 housekeeper genes using quantitative RT-PCR. Single sample gene set enrichment analysis (ssGSEA)[4] was performed to quantify CCP along with some other cancer-related hallmarks such as “epithelial–mesenchymal transition (EMT),” “angiogenesis,” and “hypoxia,” based on corresponding gene sets retrieved from Molecular Signatures Database (MSigDB)[5] and RSEM-normalized RNA-seq data of 79 ACC samples from The Cancer Genome Atlas (TCGA).[6] Cibersort was used to quantify the immune infiltration based on the gene expression profile.[7] Z-score method was used to normalize both ssGSEA and immune infiltration scores. Distance between different hallmarks was depicted using hierarchical clustering analysis.
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