Experimental and computational validation of models of fluorescent and luminescent reporter genes in bacteria
Background Fluorescent and luminescent reporter genes have become popular tools for the
real-time monitoring of gene expression in living cells. However, mathematical models are …
real-time monitoring of gene expression in living cells. However, mathematical models are …
Mathematical modeling of pro-and anti-inflammatory signaling in macrophages
Inflammation is a beneficial mechanism that is usually triggered by injury or infection and is
designed to return the body to homeostasis. However, uncontrolled or sustained …
designed to return the body to homeostasis. However, uncontrolled or sustained …
Optimal experimental design for parameter estimation of an IL-6 signaling model
A Sinkoe, J Hahn - Processes, 2017 - mdpi.com
IL-6 signaling plays an important role in inflammatory processes in the body. While a
number of models for IL-6 signaling are available, the parameters associated with these …
number of models for IL-6 signaling are available, the parameters associated with these …
Investigation of IL-6 and IL-10 signalling via mathematical modelling
Steatosis, ie, the accumulation of fat in hepatocytes, plays an important role in the
progression of non-alcoholic fatty liver disease (NAFLD). It has been shown that STAT3 …
progression of non-alcoholic fatty liver disease (NAFLD). It has been shown that STAT3 …
Inference of quantitative models of bacterial promoters from time-series reporter gene data
D Stefan, C Pinel, S Pinhal, E Cinquemani… - PLoS Computational …, 2015 - journals.plos.org
The inference of regulatory interactions and quantitative models of gene regulation from time-
series transcriptomics data has been extensively studied and applied to a range of problems …
series transcriptomics data has been extensively studied and applied to a range of problems …
Fuzzy modeling of signal transduction networks
This work proposes a fuzzy modeling-based approach for describing signal transduction
networks. Many key steps in signal transduction mechanisms have been investigated and …
networks. Many key steps in signal transduction mechanisms have been investigated and …
Model simplification procedure for signal transduction pathway models: An application to IL-6 signaling
Mathematical models of signal transduction pathways are characterized by a large number
of proteins and uncertain parameters. One challenge involving these models is parameter …
of proteins and uncertain parameters. One challenge involving these models is parameter …
WellInverter: a web application for the analysis of fluorescent reporter gene data
Background Fluorescent reporter genes have become widely used for monitoring gene
expression in living cells. When a microbial strain carrying a reporter gene is grown in a …
expression in living cells. When a microbial strain carrying a reporter gene is grown in a …
Reconstructing dynamic promoter activity profiles from reporter gene data
Accurate characterization of promoter activity is important when designing expression
systems for systems biology and metabolic engineering applications. Promoters that …
systems for systems biology and metabolic engineering applications. Promoters that …
Fluorescent reporter genes and the analysis of bacterial regulatory networks
The understanding of the regulatory networks controlling the adaptation of bacteria to
changes in their environment is critically dependent on the ability to monitor the dynamics of …
changes in their environment is critically dependent on the ability to monitor the dynamics of …