Reaction Factoring and Bipartite Update Graphs Accelerate the Gillespie Algorithm for Large-Scale Biochemical Systems

Open Access

Peer-reviewed

Research Article

Sagar Indurkhya,

Affiliation Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America
⨯
Jacob Beal

* E-mail: jakebeal@bbn.com

Affiliation BBN Technologies, Cambridge, Massachusetts, United States of America
⨯

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Reactants
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Algorithms
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Graphs
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Biochemical simulations
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Trees
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Simulation and modeling
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Leaves
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MAPK signaling cascades
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