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Linear models of activation cascades: analytical solutions and coarse-graining of delayed signal transduction
Mariano Beguerisse-Diaz, Radhika Desikan, Mauricio Barahona
Cellular signal transduction usually involves activation cascades, the sequential activation of a series of proteins following the reception of an input signal. Here we study the c…
Encoding dynamics for multiscale community detection: Markov time sweeping for the Map equation
Michael T. Schaub, Renaud Lambiotte, Mauricio Barahona
The detection of community structure in networks is intimately related to finding a concise description of the network in terms of its modules. This notion has been recently exploi…
Markov dynamics as a zooming lens for multiscale community detection: non clique-like communities and the field-of-view limit
Michael T. Schaub, Jean-Charles Delvenne, Sophia N. Yaliraki +1
In recent years, there has been a surge of interest in community detection algorithms for complex networks. A variety of computational heuristics, some with a long history, have be…
Squeeze-and-Breathe Evolutionary Monte Carlo Optimisation with Local Search Acceleration and its application to parameter fitting
Mariano Beguerisse-Diaz, Baojun Wang, Radhika Desikan +1
Motivation: Estimating parameters from data is a key stage of the modelling process, particularly in biological systems where many parameters need to be estimated from sparse and n…
Role-similarity based comparison of directed networks
Kathryn Cooper, Mauricio Barahona
The widespread relevance of complex networks is a valuable tool in the analysis of a broad range of systems. There is a demand for tools which enable the extraction of meaningful i…