title: On the calculation of signal transduction ability of signaling transduction pathways in intracellular communication: systematic approach.
abstract: BACKGROUND
  The major function of signal transduction pathways in cells is to sense signals from the environment and process the information through signaling molecules in order to regulate the activity of transcription factors. On the molecular level, the information transmitted by a small number of signal molecules is amplified in the internal signaling pathway through enzyme catalysis, molecular modification and via the activation or inhibition of interactions. However, the dynamic system behavior of a signaling pathway can be complex and, despite knowledge of the pathway components and interactions, it is still a challenge to interpret the pathways behavior. Therefore, a systematic method is proposed in this study to quantify the signal transduction ability.
  
  
  RESULTS
  Based on the non-linear signal transduction system, signal transduction ability can be investigated by solving a Hamilton-Jacobi inequality (HJI)-constrained optimization problem. To avoid difficulties associated with solving a complex HJI-constrained optimization problem for signal transduction ability, the Takagi-Sugeno fuzzy model is introduced to approximate the non-linear signal transduction system by interpolating several local linear systems so that the HJI-constrained optimization problem can be replaced by a linear matrix inequality (LMI)-constrained optimization problem. The LMI problem can then be efficiently solved for measuring signal transduction ability. Finally, the signal transduction ability of two important signal transduction pathways was measured by the proposed method and confirmed using experimental data, which is useful for biotechnological and therapeutic application and drug design.
authors.affiliation: Department of Electrical Engineering, Laboratory of Control and Systems Biology, National Tsing Hua University, Hsinchu, Taiwan, ROC. bschen@ee.nthu.edu.tw
authors.forename: Bor-Sen
authors.initials: BS
authors.lastname: Chen
authors.forename: Chia-Chou
authors.initials: CC
authors.lastname: Wu
mesh_terms: D002450:Cell Communication; D019295:Computational Biology / Q000379:methods*; D017143:Fuzzy Logic; D020935:MAP Kinase Signaling System; D016328:NF-kappa B / Q000378:metabolism; D017711:Nonlinear Dynamics; D015398:Signal Transduction
chemical_list: D016328:NF-kappa B