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A System Biology Approach to Construct a Gene Regulatory Network for C-Kit Mediated Proliferation in Hematopoietic Stem Cells

Many human diseases are characterized by deviations in signaling pathway linked to cell proliferation and differentiation. The crucial interaction of the receptor tyrosine kinase, c-Kit, with its ligand steel factor regulates the homeostatic immune and hematopoietic systems, controlling their fascinating features of proliferation, differentiation, survival. The gene c-Kit has been reported to be associated with a spectrum of human diseases and most commonly observed in cancer. The use of molecular techniques like gene therapy to alter human hematopoietic stem and progenitor cells presents great possibilities for various genetic and oncologic illnesses. As a result, elucidating the molecular machinery that controls proliferation is critical. Understanding the mysterious mechanisms that underpin proliferation has long been a focus of basic and clinical research. A combination of computational biology tools and interaction discovery techniques is ideal for global molecular characterization of disease pathways. When primary events are ambiguous due to their enormous complexity, constructing and analyzing the gene regulatory network of proliferation can be the most effective technique to comprehend negative consequences. We identified a network of 356 nodes and 178 interactions as reported in the STRING database, a search engine for retrieving interacting gene/protein. The study pipeline then moved on to functional clustering of related partners utilizing molecular complex detection (MCODE). We then filtered ten hub genes from the network with strong associations and having a critical role in proliferation. Surprisingly, the associated protein we discovered through the network shared more functional similarities with known cancer-related genes. This network-based approach to our microarray data assists in the identification of novel genes/proteins and sheds light on their critical function in c-Kit-mediated hematopoietic stem cell proliferation.