@article{9540372fa4ce445ab686ce957d7683bb,
title = "Backward simulation for inferring hidden biomolecular kinetic profiles",
abstract = "Our backward simulation (BS) is an approach to infer the dynamics of individual components in ordinary differential equation (ODE) models, given the information on relatively downstream components or their sums. Here, we demonstrate the use of BS to infer protein synthesis rates with a given profile of protein concentrations over time in a circadian system. This protocol can also be applied to a wide range of problems with undetermined dynamics at the upstream levels. For complete details on the use and execution of this protocol, please refer to Lim et al. (2021).",
keywords = "Biophysics, Computer sciences, Systems biology",
author = "Junghun Chae and Roktaek Lim and Ghim, {Cheol Min} and Kim, {Pan Jun}",
note = "Funding Information: This work was supported by Hong Kong Baptist University, Research Committee, Start-up Grant for New Academics (R.L. and P.-J.K.) and the National Research Foundation of Korea Grants NRF-2020R1A4A1019140 and NRF-2020R1F1A1075942 funded by the Ministry of Science and ICT (J.C. and C.-M.G). This work was partially conducted with the resources of the High Performance Cluster Computing Centre, Hong Kong Baptist University, which receives funding from Research Grant Council, University Grant Committee of the HKSAR and Hong Kong Baptist University. We also acknowledge the support of the UNIST Supercomputing Center for the computing resources. C.-M.G. and P.-J.K. supervised the research. J.C. R.L. C.-M.G. and P.-J.K. designed the research. J.C. and R.L. performed the research. J.C. R.L. C.-M.G. and P.-J.K. wrote the manuscript. The authors declare no competing interests. Funding Information: This work was supported by Hong Kong Baptist University , Research Committee, Start-up Grant for New Academics (R.L. and P.-J.K.) and the National Research Foundation of Korea Grants NRF-2020R1A4A1019140 and NRF-2020R1F1A1075942 funded by the Ministry of Science and ICT (J.C. and C.-M.G). This work was partially conducted with the resources of the High Performance Cluster Computing Centre, Hong Kong Baptist University, which receives funding from Research Grant Council, University Grant Committee of the HKSAR and Hong Kong Baptist University. We also acknowledge the support of the UNIST Supercomputing Center for the computing resources. Publisher Copyright: {\textcopyright} 2021 The Author(s)",
year = "2021",
month = dec,
day = "17",
doi = "10.1016/j.xpro.2021.100958",
language = "English",
volume = "2",
journal = "STAR Protocols",
issn = "2666-1667",
publisher = "Cell Press",
number = "4",
}