44 citations · 72 across the 6 of their papers we have counts for
6 papers
The colon-pile
Alexei Vazquez
Bacteria populate the colon where they replicate and migrate in response to nutrient availability. Here I model the colon bacterial population as a sandpile model, the colon-pile.…
Cell population heterogeneity driven by stochastic partition and growth optimality
Jorge Fernandez-de-Cossio-Diaz, Roberto Mulet, Alexei Vazquez
A fundamental question in biology is how cell populations evolve into different subtypes based on homogeneous processes at the single cell level. Here we show that population bimod…
Higher Order Boolean networks as models of cell state dynamics
Elke K. Markert, Nils Baas, Arnold J. Levine +1
The regulation of the cell state is a complex process involving several components. These complex dynamics can be modeled using Boolean networks, allowing us to explain the existen…
Optimal cytoplasmatic density and flux balance model under macromolecular crowding effects
Alexei Vazquez
Macromolecules occupy between 34 and 44% of the cell cytoplasm, about half the maximum pack- ing density of spheres in three dimension. Yet, there is no clear understanding of what…
Global protein function prediction in protein-protein interaction networks
A. Vazquez, A. Flammini, A. Maritan +1
The determination of protein functions is one of the most challenging problems of the post-genomic era. The sequencing of entire genomes and the possibility to access gene's co-exp…
Modeling of protein interaction networks
A. Vazquez, A. Flammini, A. Maritan +1
We introduce a graph generating model aimed at representing the evolution of protein interaction networks. The model is based on the hypotesis of evolution by duplications and dive…