28 citations
3 papers
q-bio.MN2017★ 20 cited
Cell cycle time series gene expression data encoded as cyclic attractors in Hopfield systems
Anthony Szedlak, Spencer Sims, Nicholas Smith +2
Modern time series gene expression and other omics data sets have enabled unprecedented resolution of the dynamics of cellular processes such as cell cycle and response to pharmace…
q-bio.MN2015★ 13 cited
Evolutionary and topological properties of gene modules and driver mutations in a leukemia gene regulatory network
Anthony Szedlak, Nicholas Smith, Li Liu +2
The diverse, specialized genes in today's lifeforms evolved from a common core of ancient, elementary genes. However, these genes did not evolve individually: gene expression is co…
q-bio.MN2014★ 28 cited
Control of asymmetric Hopfield networks and application to cancer attractors
Anthony Szedlak, Giovanni Paternostro, Carlo Piermarocchi
The asymmetric Hopfield model is used to simulate signaling dynamics in gene/transcription factor networks. The model allows for a direct mapping of a gene expression pattern into…