TY - JOUR AU - Sun, X. AU - Jin, L. AU - Xiong, M. PY - 2008 DA - 2008// TI - Extended Kalman filter for estimation of parameters in nonlinear state-space models of biochemical networks JO - PLoS ONE VL - 3 UR - https://doi.org/10.1371/journal.pone.0003758 DO - 10.1371/journal.pone.0003758 ID - Sun2008 ER - TY - JOUR AU - Lillacci, G. AU - Khammash, M. PY - 2010 DA - 2010// TI - Parameter estimation and model selection in computational biology JO - PLoS Comput Biol VL - 6 UR - https://doi.org/10.1371/journal.pcbi.1000696 DO - 10.1371/journal.pcbi.1000696 ID - Lillacci2010 ER - TY - JOUR AU - Mendes, P. AU - Kell, D. PY - 1998 DA - 1998// TI - Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation JO - Bioinformatics VL - 14 UR - https://doi.org/10.1093/bioinformatics/14.10.869 DO - 10.1093/bioinformatics/14.10.869 ID - Mendes1998 ER - TY - JOUR AU - Kirkpatrick, S. AU - Gelatt, C. D. AU - Vecchi, M. P. PY - 1983 DA - 1983// TI - Optimization by simulated annealing JO - Science VL - 220 UR - https://doi.org/10.1126/science.220.4598.671 DO - 10.1126/science.220.4598.671 ID - Kirkpatrick1983 ER - TY - JOUR AU - Moles, C. G. AU - Mendes, P. AU - Banga, J. R. PY - 2003 DA - 2003// TI - Parameter estimation in biochemical pathways: a comparison of global optimization methods JO - Genome Res VL - 13 UR - https://doi.org/10.1101/gr.1262503 DO - 10.1101/gr.1262503 ID - Moles2003 ER - TY - JOUR AU - Quach, M. AU - Brunel, N. AU - d'Alche Buc, F. PY - 2007 DA - 2007// TI - Estimating parameters and hidden variables in non-linear state-space models based on ODEs for biological networks inference JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm510 DO - 10.1093/bioinformatics/btm510 ID - Quach2007 ER - TY - JOUR AU - Julier, S. AU - Uhlmann, J. PY - 2004 DA - 2004// TI - Unscented filtering and nonlinear estimation JO - Proc IEEE VL - 92 UR - https://doi.org/10.1109/JPROC.2003.823141 DO - 10.1109/JPROC.2003.823141 ID - Julier2004 ER - TY - JOUR AU - Kandepu, R. AU - Foss, B. AU - Imsland, L. PY - 2008 DA - 2008// TI - Applying the unscented Kalman filter for nonlinear state estimation JO - J Process Control VL - 18 UR - https://doi.org/10.1016/j.jprocont.2007.11.004 DO - 10.1016/j.jprocont.2007.11.004 ID - Kandepu2008 ER - TY - JOUR AU - Yue, H. AU - Brown, M. AU - Knowles, J. AU - Wang, H. AU - Broomhead, D. S. AU - Kell, D. B. PY - 2006 DA - 2006// TI - Insights into the behaviour of systems biology models from dynamic sensitivity and identifiability analysis: a case study of NF-kB signaling pathway JO - Mol Biosyst VL - 2 UR - https://doi.org/10.1039/b609442b DO - 10.1039/b609442b ID - Yue2006 ER - TY - JOUR AU - Yao, K. Z. AU - Shaw, B. M. AU - Kou, B. AU - McAuley, K. B. AU - Bacon, D. W. PY - 2003 DA - 2003// TI - Modeling ethylene/butene copolymerization with multi-site catalysts: parameter estimability and experimental design JO - Polym React Eng VL - 11 UR - https://doi.org/10.1081/PRE-120024426 DO - 10.1081/PRE-120024426 ID - Yao2003 ER - TY - CHAP AU - Geffen, D. PY - 2008 DA - 2008// TI - Parameter identifiability of biochemical reaction networks in systems biology BT - Masters Thesis, Department of Chemical Engineering, Queen's University, Kingston ID - Geffen2008 ER - TY - JOUR AU - Rohwer, J. M. AU - Botha, F. C. PY - 2001 DA - 2001// TI - Analysis of sucrose accumulation in the sugar cane culm on the basis of in vitro kinetic data JO - Biochem J VL - 358 UR - https://doi.org/10.1042/bj3580437 DO - 10.1042/bj3580437 ID - Rohwer2001 ER - TY - JOUR AU - Chen, W. W. AU - Niepel, M. AU - Sorger, P. K. PY - 2010 DA - 2010// TI - Classic and contemporary approaches to modeling biochemical reactions JO - Genes Dev VL - 24 UR - https://doi.org/10.1101/gad.1945410 DO - 10.1101/gad.1945410 ID - Chen2010 ER - TY - JOUR AU - Quaiser, T. AU - Monnigmann, M. PY - 2009 DA - 2009// TI - Systematic identifiability testing for unambiguous mechanistic modeling--application to JAK-STAT, MAP kinase, and NK-kB signaling pathway models JO - BMC Syst Biol VL - 3 UR - https://doi.org/10.1186/1752-0509-3-50 DO - 10.1186/1752-0509-3-50 ID - Quaiser2009 ER - TY - BOOK AU - Asprey, S. P. AU - Macchietto, S. PY - 2003 DA - 2003// TI - Dynamic Model Development: Methods, Theory and Applications PB - Elsevier CY - Amsterdam ID - Asprey2003 ER - TY - JOUR AU - Jacquez, J. A. AU - Greif, P. PY - 1985 DA - 1985// TI - Numerical parameter identifiability and estimability: integrating identifiability, estimability, and optimal sampling design JO - Math Biosci VL - 77 UR - https://doi.org/10.1016/0025-5564(85)90098-7 DO - 10.1016/0025-5564(85)90098-7 ID - Jacquez1985 ER - TY - JOUR AU - Degenring, D. AU - Froemel, C. AU - Dikta, G. AU - Takors, R. PY - 2004 DA - 2004// TI - Sensitivity analysis for the reduction of complex metabolism models JO - J Process Control VL - 14 UR - https://doi.org/10.1016/j.jprocont.2003.12.008 DO - 10.1016/j.jprocont.2003.12.008 ID - Degenring2004 ER - TY - STD TI - Terejanu GA: Unscented Kalman filter tutorial.[http://users.ices.utexas.edu/~terejanu/files/tutorialUKF.pdf] UR - http://users.ices.utexas.edu/~terejanu/files/tutorialUKF.pdf ID - ref18 ER - TY - JOUR AU - Baker, R. D. PY - 2001 DA - 2001// TI - A methodology for sensitivity analysis of models fitted to data using statistical methods JO - IMA J Manag Math VL - 12 UR - https://doi.org/10.1093/imaman/12.1.23 DO - 10.1093/imaman/12.1.23 ID - Baker2001 ER - TY - STD TI - Brennan C: Notes on numerical differentiation. School of Electronic Engineering, Dublin City University.[http://elm.eeng.dcu.ie/~ee317/Course_Notes/handout1.pdf] UR - http://elm.eeng.dcu.ie/~ee317/Course_Notes/handout1.pdf ID - ref20 ER - TY - STD TI - Kalman Intro, PSAS[http://psas.pdx.edu/KalmanIntro/] UR - http://psas.pdx.edu/KalmanIntro/ ID - ref21 ER - TY - CHAP AU - Julier, S. J. AU - Uhlmann, J. K. PY - 1997 DA - 1997// TI - A new extension of the Kalman filter to nonlinear systems BT - International Symposium on Aerospace/Defense Sensing, Simulation and Controls ID - Julier1997 ER -