“… | I want to model… | My data are… | Consider this kind of maths | Example refs |
Basic regenerative biology | Gene regulation & transcriptional control | Transcriptomics, time-course of gene/protein expression, live imaging of gene/protein expression | Differential equations for e.g. concentration of mRNA, stochastic models for control of gene expression by proteins | 69 – 71 |
Cell migration | Cell tracking, population snapshot, time-course of population | Cell-based, differential equations, statistical | 17 , 18 , 26 , 27 |
Cell-cell signalling | Cell counts, time-course of cell number, signalling molecule concentration | Differential equations, hybrid models | 37 – 40 , 62 , 64 |
Relevant to bioreactors | Lineage choice, differentiation, cell reprogramming | Clonal tracking, live imaging of cell phenotype, transcriptomics, epigenomics, metabolic activity | Stochastic and deterministic differential equation models of cell division & differentiation | Relevant models from different applications: 19 , 28 – 30 , 72 |
Pattern formation, growth | High-content microscopy images/movies | Cell-based, differential equations | 9 , 11 , 14 , 31 , 32 , 41 , 46 – 48 , 50 , 51 , 53 – 58 , 73 |
Bioreactor optimisation | Flow rates, inlet and outlet solute concentrations, cell distributions | Differential equations | |
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