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Molecular Systems Biology|November 19, 2009
Strategies for cellular decision-makingTheodore J Perkins, Peter S SwainJournal of Theoretical Biology|October 7, 2023
A Markov constraint to uniquely identify elementary flux mode weights in unimolecular metabolic networksJustin G Chitpin, Theodore J PerkinsCell Reports Methods|May 22, 2026
Atomic elementary flux modes explain the steady state flow of metabolites in large-scale flux networksJustin G Chitpin, Theodore J PerkinsJournal of Theoretical Biology|August 11, 2004
Inferring models of gene expression dynamicsTheodore J Perkins, Mike Hallett, Leon GlassBMC Bioinformatics|February 16, 2021
WACS: improving ChIP-seq peak calling by optimally weighting controlsAseel Awdeh, Marcel Turcotte, Theodore J PerkinsPlos One|January 24, 2014
Pooled screening for synergistic interactions subject to blocking and noiseKyle Li, Doina Precup, Theodore J PerkinsBio Systems|January 3, 2006
Dynamical properties of model gene networks and implications for the inverse problemTheodore J Perkins, Mike Hallett, Leon GlassInterface Focus|August 27, 2025
Genetic network structure and dynamics: identifying simple negative feedback loopsTheodore J Perkins, Roderick Edwards, Leon GlassPhilosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences|October 6, 2010
Robust dynamics in minimal hybrid models of genetic networksTheodore J Perkins, Roy Wilds, Leon GlassJournal of the Royal Society, Interface|September 15, 2012
What do molecules do when we are not looking? State sequence analysis for stochastic chemical systemsPavel Levin, Jérémie Lefebvre, Theodore J PerkinsPageof 9