Determining Physical Mechanisms of Gene Expression Regulation from Single Cell Gene Expression Data
Fig 5
Transcription factor-specific kinetic parameter changes.
For each specific gene, it is possible to use EPiK to predict which kinetic parameters vary throughout differentiation. (A-D) For each transition between populations of cells, the kinetic parameter changes are predicted for each TF using all six methods shown in the key, which we represent by six colored rectangles– the color corresponds to the parameters predicted to have changed, as designated in the key. If there are not enough cells with a certain gene expressed in order to calculate parameter changes, then the rectangles are depicted as white. The results are shown for a selection of TFs: Eto2 (A), Mitf (B), Nfe2 (C), and PU.1 (D). (E-H) To demonstrate that EPiK provides reasonable results, we depict the maximum likelihood estimates for Kt and Kon for each population of cells (pruned dataset). If there is a predominant change in Kon (red), Kt (yellow), or both variables (orange), then these populations are connected by lines of the corresponding color.