Correlation between oncogenic mutations and parameter sensitivity of the apoptosis pathway model.
One of the major breakthroughs in oncogenesis research in recent years is the discovery that, in most patients, oncogenic mutations are concentrated in a few core biological functional pathways. This discovery indicates that oncogenic mechanisms are highly related to the dynamics of biologic regulatory networks, which govern the behaviour of functional pathways. Here, we propose that oncogenic mutations found in different biological functional pathways are closely related to parameter sensitivity of the corresponding networks. To test this hypothesis, we focus on the DNA damage-induced apoptotic pathway--the most important safeguard against oncogenesis. We first built the regulatory network that governs the apoptosis pathway, and then translated the network into dynamics equations. Using sensitivity analysis of the network parameters and comparing the results with cancer gene mutation spectra, we found that parameters that significantly affect the bifurcation point correspond to high-frequency oncogenic mutations. This result shows that the position of the bifurcation point is a better measure of the functionality of a biological network than gene expression levels of certain key proteins. It further demonstrates the suitability of applying systems-level analysis to biological networks as opposed to studying genes or proteins in isolation.
Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences at Peking University, Beijing, China.
Jia
J
Chen
Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences at Peking University, Beijing, China ; School of Physics and the State Key Laboratory for Artificial Microstructures and Mesoscopic Physics, Peking University, Beijing, China.
Haicen
H
Yue
Center for Quantitative Biology and Peking-Tsinghua Center for Life Sciences at Peking University, Beijing, China ; School of Physics and the State Key Laboratory for Artificial Microstructures and Mesoscopic Physics, Peking University, Beijing, China.
Qi
Q
Ouyang
D000465:Algorithms; D017209:Apoptosis; D053148:Caspase 3 / Q000235:genetics; D003198:Computer Simulation; D004249:DNA Damage; D020869:Gene Expression Profiling / Q000379:methods; D053263:Gene Regulatory Networks; D006801:Humans; D008954:Models, Biological; D009154:Mutation; D009369:Neoplasms / Q000235:genetics*; D011506:Proteins / Q000235:genetics; D015398:Signal Transduction / Q000235:genetics
D011506:Proteins; C505407:CASP3 protein, human; D053148:Caspase 3