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Ten simple rules for biologists learning to program., and . PLoS Computational Biology, (2018)Systems analysis of the transcriptional response of human ileocecal epithelial cells to Clostridium difficile toxins and effects on cell cycle control., , , , , , , , , and . BMC Systems Biology, (2012)Reconciliation of Genome-Scale Metabolic Reconstructions for Comparative Systems Analysis., , , and . PLoS Computational Biology, (2011)Managing uncertainty in metabolic network structure and improving predictions using EnsembleFBA., and . PLoS Computational Biology, (2017)Genome-Scale Reconstruction and Analysis of the Pseudomonas putida KT2440 Metabolic Network Facilitates Applications in Biotechnology., , , , , , , and . PLoS Computational Biology, (2008)Proteomic and network analysis characterize stage-specific metabolism in Trypanosoma cruzi., , , , , , , and . BMC Systems Biology, (2009)Inference of Network Dynamics and Metabolic Interactions in the Gut Microbiome., , , , and . PLoS Computational Biology, (2015)Nano-motion Dynamics are Determined by Surface-Tethered Selectin Mechanokinetics and Bond Formation., , and . PLoS Computational Biology, (2009)Multiscale biosystems integration: Coupling intracellular network analysis with tissue-patterning simulations., , and . IBM Journal of Research and Development, 50 (6): 601-616 (2006)Novel pathway compendium analysis elucidates mechanism of pro-angiogenic synthetic small molecule., , , , , and . Bioinformatics, 24 (20): 2384-2390 (2008)