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US 11,776,659 B1Granted
Simulations networked activity using dynamics-based constraints on reusable network component
AssigneeX Development LLC
InventorsJana Hartman, Frank Russo
Life of this patent
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Abstract
Techniques for simulating networks using dynamics-based constraints are disclosed.
Claims26
A system for simulating networks using dynamics-based constraints, the system comprising:
- one or more data processors;
- and
- a non-transitory computer readable storage medium containing instructions which, when executed on the one or more data processors, cause the one or more data processors to perform actions including:
- receiving input that indicates a set of reactions representative of activity of a biological network, each reaction of the set of reactions identifying stoichiometry indicative of relative quantities of metabolites being consumed and produced by the reaction;
- identifying, based on the set of reactions, a metabolite that is reused across cycles of at least one reaction of the set of reactions;
- defining a constraint on a quantity of the metabolite based on one or more characteristics of the reuse of the metabolite across cycles of the at least one reaction;
- and
- executing a simulation using the set of reactions and the constraint, wherein execution of the simulation generates one or more simulation outputs.
5 more elements
A computer-implemented method comprising:
- receiving input that indicates a set of reactions representative of activity of a biological network, each reaction of the set of reactions identifying stoichiometry indicative of relative quantities of metabolites being consumed and produced by the reaction;
- identifying, based on the set of reactions, a metabolite that is reused across cycles of at least one reaction of the set of reactions;
- defining a constraint on a quantity of the metabolite based on one or more characteristics of the reuse of the metabolite across cycles of the at least one reaction;
- and
- executing a simulation using the set of reactions and the constraint, wherein execution of the simulation generates one or more simulation outputs.
2 more elements
A computer-program product tangibly embodied in a non-transitory machine-readable storage medium, including instructions configured to cause one or more data processors to perform actions including:
- receiving input that indicates a set of reactions representative of activity of a biological network, each reaction of the set of reactions identifying stoichiometry indicative of relative quantities of metabolites being consumed and produced by the reaction;
- identifying, based on the set of reactions, a metabolite that is reused across cycles of at least one reaction of the set of reactions;
- defining a constraint on a quantity of the metabolite based on one or more characteristics of the reuse of the metabolite across cycles of the at least one reaction;
- and
- executing a simulation using the set of reactions and the constraint, wherein execution of the simulation generates one or more simulation outputs.
2 more elements
Dependencies are inferred from the claim text.