Gene Expression Analysis via GeneNominator™ to Find Biological Pathways

Helping You Find Mechanistic Keys to Biomarker Discovery for Precision Oncology

GeneNominator™ is a bioinformatics tool that couples drug sensitivity data with gene expression data. It uses large datasets of gene expression to identify interconnections between sensitivity or resistance to your anti-cancer drug and gene transcription. Markers for your compounds that are associated with specific diseases will support the patient stratification for clinical trials.

Biological Markers of Protein Interactions Support the Development of Precision Medicine

Your anti-cancer drug candidate may act on a chain of biological changes. Features of the bioinformatics analysis that support the pathway analysis are:

  • Computational comparison of drug sensitivity to mRNA data of 18,900 genes

  • Analysis on subsets of genes to facilitate the focus on your target

  • Analysis of known protein-protein interactions to find genes that act in the same pathway

  • Mapping of your compound’s genetic markers against 180 therapeutics

Identification of Downstream Effects in Signalling Pathways

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 relationships. To support decision-making on next steps, we also perform the analysis on smaller subsets of genes, such as 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.

Your Compound’s Cancer Gene Expression Signature Is Compared to 180 Therapeutics

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.

GeneNominator Correlation Expression Cancer Genes And Sensetivity to EGFR inhibitor afatinib
Gene expression analysis for MDM2 inhibitor nutlin-3a: expression of MDM2 relates to drug sensitivity for nutlin-3a

References

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.
http://mct.aacrjournals.org/content/early/2018/10/31/1535-7163.MCT-18-0877

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