Oncofinder, a new method for the analysis of intracellular signaling pathway activation using transcriptomic data.

ABSTRACT: We propose a new biomathematical method, OncoFinder, for both quantitative and qualitative analysis of the intracellular signaling pathway activation (SPA). This method is universal and may be used for the analysis of any physiological, stress, malignancy and other perturbed conditions at the molecular level. In contrast to the other existing techniques for aggregation and generalization of the gene expression data for individual samples, we suggest to distinguish the positive/activator and negative/repressor role of every gene product in each pathway. We show that the relative importance of each gene product in a pathway can be assessed using kinetic models for "low-level" protein interactions. Although the importance factors for the pathway members cannot be so far established for most o

SUBMITTER: Buzdin AA 

PROVIDER: S-EPMC3971199 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature