MarketGPT: Developing a pre-trained transformer (GPT) for modeling financial time series
2024
Scalable agent-based modeling for complex financial market simulations
Comparison of rapid-, kaolin-, and native-TEG parameters in burn patient cohorts with acute burn-induced coagulopathy and abnormal fibrinolytic function
2023
Convergent approaches to delineate the metabolic regulation of tumor invasion by hyaluronic acid biosynthesis
Endothelial cells metabolically regulate breast cancer invasion toward a microvessel
Virtual high-throughput screening of vapor-deposited amphiphilic polymers for inhibiting biofilm formation
Integrated constraint-based modeling of E. coli cell-free protein synthesis
Modeling and analysis of a cell-free gluconate responsive biosensor
2022
2020
Engineering orthogonal human O-linked glycoprotein biosynthesis in bacteria
Effective biophysical modeling of cell-free transcription and translation processes
The evolution of cell-free biomanufacturing
Genome scale sequence specific dynamic model of cell-free protein synthesis in E. coli
2019
Absolute quantification of cell-free protein synthesis metabolism by reversed-phase liquid chromatography-mass spectrometry
Improving designer glycan production in Escherichia coli through model-guided metabolic engineering
Analysis of the role of thrombomodulin in all-trans retinoic acid treatment of coagulation disorders in cancer patients
Retinoic acid and 6-formylindolo(3,2-b)carbazole (FICZ) combination therapy reveals putative targets for enhancing response in non-APL AML
SEML: A Simplified English Modeling Language
Kinetic modeling of coagulation and fibrinolysis with platelets
2018
Multi-scale computational study of the Warburg effect, reverse Warburg effect and glutamine addiction in solid tumors
Sequence specific modeling of E. coli cell-free protein synthesis
Src family kinase inhibitor bosutinib enhances retinoic acid-induced differentiation of HL-60 leukemia cells
Potential for subsets of wt-NPM1 primary AML blasts to respond to retinoic acid treatment
Dynamic constraint-based model of cell-free protein production
Dynamic Optimization with Particle Swarms (DOPS)
2017
Reduced order modeling and analysis of the human complement system
An effective model of the retinoic acid induced HL-60 differentiation program
JuPOETs: A constrained multiobjective optimization approach to estimate biochemical model ensembles in Julia
2016
Population heterogeneity in the epithelial to mesenchymal transition is controlled by NFAT and phosphorylated Sp1
Differential contributions of intrinsic and extrinsic pathways to thrombin generation in adult, maternal and cord plasma samples
Hybrid cybernetic modeling with flux balance analysis
Prostate signal transduction model
2015
Induced myelomonocytic differentiation in leukemia cells is accompanied by noncanonical transcription factor expression
6-Formylindolo(3,2-b)carbazole (FICZ) modulates the signalsome responsible for RA-induced differentiation of HL-60 myeloblastic leukemia cells
Generating effective models and parameters for RNA genetic circuits
GW5074 and PP2 kinase inhibitors implicate nontraditional c-Raf and Lyn function as drivers of retinoic acid-induced maturation
Reduced order extrinsic coagulation model
2014
2013
Physicochemical regulation of endothelial sprouting in a 3D microfluidic angiogenesis model
The Src-family kinase inhibitor PP2 rescues inducible differentiation events in emergent retinoic acid-resistant myeloblastic leukemia cells
Hierarchical approaches for systems modeling in cardiac development
2012
Multiscale models of breast cancer progression
2011
Computational modeling and analysis of insulin induced eukaryotic translation initiation
A review of the mammalian unfolded protein response
Interferon regulatory factor-1 binds c-Cbl, enhances MAPK signaling and promotes retinoic acid-induced differentiation of HL-60 cells
Modeling and analysis of retinoic acid induced differentiation of uncommitted precursor cells
Modelling and analysis of an ensemble of eukaryotic translation initiation models
2010
Ensembles of uncertain mathematical models can identify network response to therapeutic interventions
RAF associates with phosphorylated nuclear BubR1 during endoreduplication induced by JAK inhibition
Ensembles of signal transduction models using Pareto Optimal Ensemble Techniques (POETs)
Arsenic trioxide cooperates with all-trans retinoic acid to enhance MAPK activation and differentiation in PML-RARalpha negative human myeloblastic leukemia cells
Analysis of the molecular networks in androgen dependent and independent prostate cancer revealed fragile and robust subsystems
Anti-factor IXa aptamer reduces propagation of thrombin generation in plasma anticoagulated with warfarin
2008
A hybrid model of anaerobic E. coli GJT001: combination of elementary flux modes and cybernetic variables
Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy
A test of highly optimized tolerance reveals fragile cell-cycle mechanisms are molecular targets in clinical cancer trials
2007
2005
Systems biology and the mathematical modelling of antibody-directed enzyme prodrug therapy (ADEPT)
2003
Cybernetic model predictive control of a continuous bioreactor with cell recycle