기초과학연구원 의생명수학그룹
Abstract: We consider the problem of nonparametric imputation using neural network models. Neural network models can capture complex nonlinear trends and interaction effects, making it a powerful tool for predicting missing values under minimum assumptions on the missingness mechanism. Statistical inference with neural network imputation, including variance estimation, is challenging because the basis for function …
We will discuss about "Collective Oscillations in coupled cell systems", Chen and Sinh, Bulletin of Mathematical Biology, 2021 We investigate oscillations in coupled systems. The methodology is based on the Hopf bifurcation theorem and a condition extended from the Routh–Hurwitz criterion. Such a condition leads to locating the bifurcation values of the parameters. With such …
We will discuss about “DeepCME: A deep learning framework for solving the Chemical Master Equation,” Gupta et al., bioRxiv, 2021 Stochastic models of biomolecular reaction networks are commonly employed in systems and synthetic biology to study the effects of stochastic fluctuations emanating from reactions involving species with low copy-numbers. For such models, the Kolmogorov’s forward …
Abstract: TBA
This talk will be presented online. Zoom link: 709 120 4849 (pw: 1234) Abstract: Organisms have evolved an internal biological clock which allows them to temporally regulate and organize their physiological and behavioral responses to cope in an optimal way with the fundamentally periodic nature of the environment. It is now well established that the …
We will discuss about “Modeling Cell-to-Cell Communication Networks Using Response-Time Distributions”, Thurley et al., Cell Systems, 2021 Abstract: Cell-to-cell communication networks have critical roles in coordinating diverse organismal processes, such as tissue development or immune cell response. However, compared with intracellular signal transduction networks, the function and engineering principles of cell-to-cell communication networks are far …
We will discuss about “Parameter Estimation in a Model of the Human Circadian Pacemaker Using a Particle Filter”, Bonarius et. al., IEEE Trans. Biomed. Eng., 2021 Abstract Objective: In the near future, real-time estimation of peoples unique, precise circadian clock state has the potential to improve the efficacy of medical treatments and improve human performance …
Abstract: Inference method for a stochastic target-mediated drug disposition model via ABC-MCMC In this study, we discuss model robustness. Model robustness is consistent performance over variations of parameters. We formulate a stochastic target-mediated drug (TMDD) model, one of the pharmacokinetic models, to capture bi-exponential drug decay in plasma. A stochastic process is used to account …
Abstract: Systems biology seeks to build quantitative predictive models of biological system behavior. Biological systems, such as the mammalian immune system, operate across multiple spatiotemporal scales with a myriad of molecular and cellular players. Thus, mechanistic, predictive models describing such systems need to address this multiscale nature. A general outstanding problem is to cope with …
This talk will be presented online. Zoom link: 709 120 4849 (pw: 1234) Abstract: Homeostasis is a recurring theme in biology that ensures that regulated variables robustly adapt to environmental perturbations. This robust perfect adaptation feature is achieved in natural circuits by using integral control, a negative feedback strategy that performs mathematical integration to achieve …
We will discuss about “Stochastic reaction networks in dynamic compartment populations”, Duso and Zechner, PNAS, 2020 Abstract: Compartmentalization of biochemical processes underlies all biological systems, from the organelle to the tissue scale. Theoretical models to study the interplay between noisy reaction dynamics and compartmentalization are sparse, and typically very challenging to analyze computationally. Recent studies …
We will discuss about “Frequency Modulation of Transcriptional Bursting Enables Sensitive and Rapid Gene Regulation”, Li et. al., Cell Systems, 2018 Abstract Gene regulation is a complex non-equilibrium process. Here, we show that quantitating the temporal regulation of key gene states (transcriptionally inactive, active, and refractory) provides a parsimonious framework for analyzing gene regulation. Our …