1. Thymocyte System Analysis Cells: Type Anatomical site Migration Receptor profile State markers Proliferation Apoptosis Molecules: Cytokines, etc. Interactions: Organ: Cell type DPDN SP Cell phase G1 G2 S M Receptor Profile Cell movement Interactions Expression Apoptosis Cell memory CD44 hi CD44 lo Up Down Object 1 Object 2 TNF IL1

2. Cell Phase

3. Concept of RA

4. Cell Motifs for Animation + + + + =

5. Emergent anatomy of the thymic lobule. The circles are developing thymocytes. The figure is a snapshot of an animated simulation. Thymocytes are color-coded for each developmental stage. Emergent Anatomy

6. Cell Migration

7. Zooming into the Thymus

8. Experimenting in silico