GeneNominator™ is a bioinformatics tool that couples drug sensitivity data to gene expression data. It uses large datasets of gene expression to identify interconnections between sensitivity and resistance to your anti cancer drug and gene transcription. Markers for your compounds that are associated with specific diseases will support the selection of patients for clinical trials.
Your anti cancer drug candidate may act on a chain of biological changes. Features of the bioinformatics analysis that support the pathway analysis are:
Gene expression analysis reveals correlations between drug sensitivity and elevated or decreased expression levels without prior knowledge on the affected biological processes. The comprehensive analysis includes mRNA data of 18,900 genes and can therefore find unexpected relations. To support decision making on next steps we also perform the analysis on smaller subsets of genes, for instance Cancer genes and Clinically Actionable genes. Protein-protein interaction network plots are analysed for genes that are known to physically interact, for example, genes that are part of the same pathway.
Unique biological markers for your compound are found by mapping the top-scoring genes against a collection of anti cancer agents that represent a wide variety of mechanisms, e.g. PARP inhibitors, kinase inhibitors, epigenetic modulators. You can directly see that your compound has a distinct profile from competitive therapeutics.
Uitdehaag et al. (2019) Combined cellular and biochemical profiling to identify predictive drug response biomarkers for kinase inhibitors approved for clinical use between 2013 and 2017. Molecular Cancer Therapeutics, 18 (2), 470-481.