A SMAD4-modulated gene profile predicts disease-free survival in stage II and III colorectal cancer
Loss of SMAD4 is associated with worse outcomes for colorectal cancer patients. We used gene ontology and data driven approach to identify a SMAD4-modulated profile and test its association with patient outcome. Using a discovery dataset of 250 colorectal cancer patients, we analyzed expression of BMP/Wnt target genes for association with SMAD4 expression. Promoters of the BMP/Wnt genes were interrogated for SMAD-binding elements. 15 genes were implicated and three tested for modulation by SMAD4 in patient-derived colorectal cancer tumoroids. Expression of the 15 genes was used for unsupervised hierarchical clustering of a training dataset and two resulting clusters modeled in a centroid model.
Cancer Type: Colorectal Cancer
GPL: 570
Number of Genes with Data: 978
Number Observations: 250
Number Outputs: 1
Imbalanced Ratio: 0.402439024
Default Task: Classification