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Stochastic models of biological networks properly take the randomness of molecular dynamics in living cells into account. Numerical solution approaches inspired by computational methods from applied probability can efficiently yield accurate results and ha ...
High-impact research articles on microfluidics and its application in biology and biotechnology. The articles have been selected from our popular Electrophoresis journal special issue. ...
A major goal of systems biology is to predict the function of biological networks. Although network topologies have been successfully determined in many cases, the quantitative parameters governing these networks generally have not. Measuring affinities of ...
Cells are too complex to model completely. This necessitates partitioning between a subsystem comprising cellular components and processes which are considered in more detail, and the balance of components and metab. of the cell. Here, this aspect of the m ...
We present a review of wave packet dynamics in different systems and stress their relation to information on the ultrafast structural changes. We show how dynamical information is obtained from ultrafast optical pump-probe studies on structural changes in ...
The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the correspondi ...
Modeling complex systems can not be done without considering a system from multiple views. Using multiple views improves model understandability. However the analysis of models that integrate multiple views is difficult. In many cases a model can be evalua ...
Recently, functionalized superparamagnetic iron oxide nanoparticles (SPIONs) have been utilized for protein separation and therapeutic delivery of DNA and drugs. The development of new methods and tools for the targeting and identification of specific biom ...
This tutorial paper considers the problem of reconstructing Genetic Regulatory Networks (GRNs) from gene expression measurements. Among various modeling frameworks that have been proposed for these biological systems, we focus on PieceWise Affine (PWA) mod ...