Using an in silico testing environment, host-pathogen interactions can be modeled and simulated by, in any effective order, identifying a plurality of biological events associated with a pathogen's invasion of a host; identifying for each biological event, at least one agent associated with the event; describing the state for each agent and/or identifying at least one action for each agent; identifying at least one interaction between agents; simulating a temporal course of the host-pathogen interaction using the plurality of biological events; and displaying the results of the simulation phase. The simulation phase may be accomplished using an agent-based simulation system that includes a feedback loop. The feedback loop is configured for continuously using output of at least one simulation as input for at least another simulation until an end is met.
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