{"id":{"repo_id":"vcu","oai_identifier":"oai:scholarscompass.vcu.edu:etd-1167"},"canonical_url":"https://search.dev.ndltd.org/etd/vcu/oai:scholarscompass.vcu.edu:etd-1167","repository":{"repo_id":"vcu","name":"Virginia Commonwealth University","base_url":"https://scholarscompass.vcu.edu/do/oai/"},"display":{"title":"Handling External Events Efficiently in Gillespie's Stochastic Simulation Algorithm","abstract":"Gillespie's Stochastic Simulation Algorithm (SSA) provides an elegant simulation approach for simulating models composed of coupled chemical reactions. Although this approach can be used to describe a wide variety biological, chemical, and ecological systems, often systems have external behaviors that are difficult or impossible to characterize using chemical reactions alone. This work extends the applicability of the SSA by adding mechanisms for the inclusion of external events and external triggers. We define events as changes that occur in the system at a specified time while triggers are defined as changes that occur to the system when a particular condition is fulfilled. We further extend the SSA with the efficient implementation of these model parameters. This work allows numerous systems that would have previously been impossible or impractical to model using the SSA to take advantage of this powerful simulation technique.","abstract_html":"Gillespie's Stochastic Simulation Algorithm (SSA) provides an elegant simulation approach for simulating models composed of coupled chemical reactions. Although this approach can be used to describe a wide variety biological, chemical, and ecological systems, often systems have external behaviors that are difficult or impossible to characterize using chemical reactions alone. This work extends the applicability of the SSA by adding mechanisms for the inclusion of external events and external triggers. We define events as changes that occur in the system at a specified time while triggers are defined as changes that occur to the system when a particular condition is fulfilled. We further extend the SSA with the efficient implementation of these model parameters. This work allows numerous systems that would have previously been impossible or impractical to model using the SSA to take advantage of this powerful simulation technique.","abstract_has_math":false,"creators":["Geltz, Brad"],"institution":null,"degree_name":"Master of Science","degree_level":"Thesis","degree_discipline":"Engineering","degree_department":null,"school":null,"contributors":["James McCollum"],"advisors":[],"committee_chairs":[],"committee_members":[],"year":2010,"date_issued":"2010-10-05T07:00:00Z","date_published":"2010-10-05T07:00:00Z","updated_at":"2026-07-24T05:53:26Z","subjects":["Stochastic simulation","Modeling biochemical systems","Gillespie algorithm","Systems biology","Efficient event handling","Engineering"],"languages":[],"rights":["© The Author"],"rights_urls":[],"identifier_entries":[{"key":"dc:identifier","label":"Identifier","values":["https://scholarscompass.vcu.edu/etd/168"],"render_values":[{"text":"https://scholarscompass.vcu.edu/etd/168","href":"https://scholarscompass.vcu.edu/etd/168","code":true}]}]},"links":{"outbound_url":"https://doi.org/10.25772/EEH0-W003","outbound_label":"DOI","outbound_source":"dc:identifier"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor","label":"Contributor","values":["James McCollum"]},{"key":"dc:creator","label":"Author","values":["Geltz, Brad"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.available","label":"Dc Date Available","values":["2015-12-20T08:00:00Z"]},{"key":"thesis:degree_discipline","label":"Discipline","values":["Engineering"]},{"key":"thesis:degree_level","label":"Degree Level","values":["Thesis"]},{"key":"thesis:degree_name","label":"Degree Name","values":["Master of Science"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["Stochastic simulation","Modeling biochemical systems","Gillespie algorithm","Systems biology","Efficient event handling","Engineering"]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:rights","label":"Dc Rights","values":["© The Author"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier","label":"Identifier","values":["https://doi.org/10.25772/EEH0-W003","https://scholarscompass.vcu.edu/etd/168"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description.abstract","label":"Abstract","values":["Gillespie's Stochastic Simulation Algorithm (SSA) provides an elegant simulation approach for simulating models composed of coupled chemical reactions. Although this approach can be used to describe a wide variety biological, chemical, and ecological systems, often systems have external behaviors that are difficult or impossible to characterize using chemical reactions alone. This work extends the applicability of the SSA by adding mechanisms for the inclusion of external events and external triggers. We define events as changes that occur in the system at a specified time while triggers are defined as changes that occur to the system when a particular condition is fulfilled. We further extend the SSA with the efficient implementation of these model parameters. This work allows numerous systems that would have previously been impossible or impractical to model using the SSA to take advantage of this powerful simulation technique."]},{"key":"dc:title","label":"Title","values":["Handling External Events Efficiently in Gillespie's Stochastic Simulation Algorithm"]}]}],"canonical_facts":{"dc:contributor":["James McCollum"],"dc:creator":["Geltz, Brad"],"dc:date.available":["2015-12-20T08:00:00Z"],"dc:description.abstract":["Gillespie's Stochastic Simulation Algorithm (SSA) provides an elegant simulation approach for simulating models composed of coupled chemical reactions. Although this approach can be used to describe a wide variety biological, chemical, and ecological systems, often systems have external behaviors that are difficult or impossible to characterize using chemical reactions alone. This work extends the applicability of the SSA by adding mechanisms for the inclusion of external events and external triggers. We define events as changes that occur in the system at a specified time while triggers are defined as changes that occur to the system when a particular condition is fulfilled. We further extend the SSA with the efficient implementation of these model parameters. This work allows numerous systems that would have previously been impossible or impractical to model using the SSA to take advantage of this powerful simulation technique."],"dc:identifier":["https://doi.org/10.25772/EEH0-W003","https://scholarscompass.vcu.edu/etd/168"],"dc:rights":["© The Author"],"dc:subject":["Stochastic simulation","Modeling biochemical systems","Gillespie algorithm","Systems biology","Efficient event handling","Engineering"],"dc:title":["Handling External Events Efficiently in Gillespie's Stochastic Simulation Algorithm"],"thesis:degree_discipline":["Engineering"],"thesis:degree_level":["Thesis"],"thesis:degree_name":["Master of Science"]},"updated_at":"2026-07-24T05:53:26Z"}