| Implementation of a practical Markov chain Monte Carlo sampling algorithm in PyBioNetFit | 0 | 0.34 | 2022 |
| Bayesian Inference Using Qualitative Observations of Underlying Continuous Variables. | 0 | 0.34 | 2020 |
| Systems biology markup language (SBML) level 3 package: multistate, multicomponent and multicompartment species, version 1, release 2. | 1 | 0.35 | 2020 |
| Modeling cell line-specific recruitment of signaling proteins to the insulin-like growth factor 1 receptor. | 0 | 0.34 | 2019 |
| Prediction Of Optimal Drug Schedules For Controlling Autophagy | 1 | 0.36 | 2018 |
| TRuML: A Translator for Rule-Based Modeling Languages | 0 | 0.34 | 2017 |
| SPATKIN: a simulator for rule-based modeling of biomolecular site dynamics on surfaces. | 0 | 0.34 | 2017 |
| BioNetFit: a fitting tool compatible with BioNetGen, NFsim and distributed computing environments. | 3 | 0.47 | 2016 |
| Perspective on the q-bio Summer School and Conference: 2007–2014 and beyond | 0 | 0.34 | 2014 |
| Binding of nucleoid-associated protein fis to DNA is regulated by DNA breathing dynamics. | 3 | 0.55 | 2013 |
| Modeling the effect of APC truncation on destruction complex function in colorectal cancer cells. | 0 | 0.34 | 2013 |
| Specification, annotation, visualization and simulation of a large rule-based model for ERBB receptor signaling. | 9 | 0.60 | 2012 |
| Hierarchical graphs for rule-based modeling of biochemical systems. | 13 | 0.46 | 2011 |
| Prediction of metabolic reactions based on atomic and molecular properties of small-molecule compounds. | 8 | 0.53 | 2011 |
| Systems Biology Approaches for Developing Artificial Pathogen Detection Networks. | 0 | 0.34 | 2010 |
| RuleMonkey: software for stochastic simulation of rule-based models. | 23 | 0.91 | 2010 |
| Using Sequence-Specific Chemical and Structural Properties of DNA to Predict Transcription Factor Binding Sites. | 6 | 0.52 | 2010 |
| Simulation of large-scale rule-based models. | 18 | 1.19 | 2009 |
| GetBonNie for building, analyzing and sharing rule-based models. | 5 | 0.52 | 2009 |
| Carbon-fate maps for metabolic reactions. | 9 | 0.69 | 2007 |
| Graph theory for rule-based modeling of biochemical networks | 30 | 2.45 | 2006 |
| Prediction of oxidoreductase-catalyzed reactions based on atomic properties of metabolites. | 6 | 0.63 | 2006 |
| Rule-Based Modeling Of Biochemical Networks | 31 | 2.23 | 2005 |
| Graphical rule-based representation of signal-transduction networks | 22 | 1.94 | 2005 |
| BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains | 88 | 6.66 | 2004 |
| Method for determining natural design principles of biological control circuits | 1 | 0.38 | 1998 |
