Control theory for synthetic biology: recent advances in system characterization, control design, and controller implementation for synthetic biology
V Hsiao, A Swaminathan… - IEEE Control Systems …, 2018 - ieeexplore.ieee.org
Living organisms are differentiated by their genetic material-millions to billions of DNA bases
encoding thousands of genes. These genes are translated into a vast array of proteins …
encoding thousands of genes. These genes are translated into a vast array of proteins …
Estimation methods for heterogeneous cell population models in systems biology
S Waldherr - Journal of The Royal Society Interface, 2018 - royalsocietypublishing.org
Heterogeneity among individual cells is a characteristic and relevant feature of living
systems. A range of experimental techniques to investigate this heterogeneity is available …
systems. A range of experimental techniques to investigate this heterogeneity is available …
Moment-based inference predicts bimodality in transient gene expression
Recent computational studies indicate that the molecular noise of a cellular process may be
a rich source of information about process dynamics and parameters. However, accessing …
a rich source of information about process dynamics and parameters. However, accessing …
Modeling cell population dynamics
Quantitative modeling is quickly becoming an integral part of biology, due to the ability of
mathematical models and computer simulations to generate insights and predict the …
mathematical models and computer simulations to generate insights and predict the …
[HTML][HTML] Single-cell stimulus-response gene expression trajectories reveal the stimulus specificities of dynamic responses by single macrophages
Macrophages induce the expression of hundreds of genes in response to immune threats.
However, current technology limits our ability to capture single-cell inducible gene …
However, current technology limits our ability to capture single-cell inducible gene …
Scalable inference of heterogeneous reaction kinetics from pooled single-cell recordings
Mathematical methods combined with measurements of single-cell dynamics provide a
means to reconstruct intracellular processes that are only partly or indirectly accessible …
means to reconstruct intracellular processes that are only partly or indirectly accessible …
Method of conditional moments (MCM) for the Chemical Master Equation: A unified framework for the method of moments and hybrid stochastic-deterministic models
The time-evolution of continuous-time discrete-state biochemical processes is governed by
the Chemical Master Equation (CME), which describes the probability of the molecular …
the Chemical Master Equation (CME), which describes the probability of the molecular …
Macrophages employ quorum licensing to regulate collective activation
Macrophage-initiated inflammation is tightly regulated to eliminate threats such as infections
while suppressing harmful immune activation. However, individual cells' signaling …
while suppressing harmful immune activation. However, individual cells' signaling …
What population reveals about individual cell identity: single-cell parameter estimation of models of gene expression in yeast
A Llamosi, AM Gonzalez-Vargas… - PLoS computational …, 2016 - journals.plos.org
Significant cell-to-cell heterogeneity is ubiquitously observed in isogenic cell populations.
Consequently, parameters of models of intracellular processes, usually fitted to population …
Consequently, parameters of models of intracellular processes, usually fitted to population …
Investigating the dose-dependency of the midgut escape barrier using a mechanistic model of within-mosquito dengue virus population dynamics
Arboviruses can emerge rapidly and cause explosive epidemics of severe disease. Some of
the most epidemiologically important arboviruses, including dengue virus (DENV), Zika virus …
the most epidemiologically important arboviruses, including dengue virus (DENV), Zika virus …