78 citations · 231 across the 10 of their papers we have counts for
10 papers
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…
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…
A scalable method for molecular network reconstruction identifies properties of targets and mutations in acute myeloid leukemia
Edison Ong, Anthony Szedlak, Yunyi Kang +9
A key aim of systems biology is the reconstruction of molecular networks, however we do not yet have networks that integrate information from all datasets available for a particula…
Multi-species network inference improves gene regulatory network reconstruction for early embryonic development in Drosophila
Anagha Joshi, Yvonne Beck, Tom Michoel
Gene regulatory network inference uses genome-wide transcriptome measurements in response to genetic, environmental or dynamic perturbations to predict causal regulatory influences…
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…
Prediction of kinase inhibitor response using activity profiling, in-vitro screening, and elastic net regression
Trish Tran, Edison Ong, Andrew P. Hodges +2
Many kinase inhibitors have been approved as cancer therapies. Recently, libraries of kinase inhibitors have been extensively profiled, thus providing a map of the strength of acti…