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Table 1 Associated events and behaviors of the simulated components (“agent types”) in MiStImm program

From: MiStImm: an agent-based simulation tool to study the self-nonself discrimination of the adaptive immune response

Agent type Simulation event or behavior Model
Self cell pop. Born ERS/CRS
Foreign antigen pop. Born ERS/CRS
Bone marrow cell pop. Born ERS/CRS
  Creates a native B cell ERS/CRS
  Creates a T helper cell ERS/CRS
B cell (individual) Born at the periphery by division ERS/CRS
  Negative selection in the bone marrow ERS/CRS
  Dies because its lifespan terminates ERS/CRS
  Emits some danger signals ERS
  Activation control process ERS
  Action*: ERS/CRS
  - detection/killing/antigen presentation ERS/CRS
  - division of weak kind ERS
  - division of intermediate kind ERS
  - division of strong kind ERS/CRS
  A plasma cell creates some antibodies ERS/CRS
Th cell (individual) Born at the periphery ERS/CRS
  Dies because its lifespan terminates ERS/CRS
  Positive and negative selection in the thymus ERS/CRS
  Emits some interleukin ERS
  Activation control process ERS
  Action*: ERS/CRS
  - detection ERS/CRS
  - division of weak kind ERS
  - division of intermediate kind ERS
  - division of strong kind ERS/CRS
Danger signal pop. Some danger signals die ERS
  Action* ERS
Interleukin pop. Some interleukins die ERS
  Action* ERS
Antibody pop. An amount of antibodies dies ERS/CRS
  An amount of antibodies acts (kill)* ERS/CRS
  1. B and Th cells are handled individually while the remaining types of agents are handled as population (“pop”.). Each row in the table describes a scheduled event of the simulation except the subprocesses of the Action events. These subprocesses can occur along an Action event. Interactions among agents can also occur as an implication of the five action events (signed with an asterisk*). Some simulation events and subprocess are elements of both the ERS and the CRS model, others are elements only the ERS model. A plasma cell is a special kind of B cells, a result of a B cell maturity process. A plasma cell has neither a B cell action event nor a B cell activation control event. On the other hand, it has an antibody birth and an antibody death event. An antibody has the same shape in the antigen lattice as the BCR of its mother plasma cell