Fig. 2: Illustration of the hematopoietic cell differentiation process with an associative GRN.
From: A neural network-based model framework for cell-fate decisions and development
a Hematopoietic differentiation topology of the model. Uppercase letters with rounded and colored background represent cell differentiation stages, the arrows between them represent transitions between the stages. The fork transitions and the conditional transition are controlled by the expression of transition-specific triggers (denoted as tr-1, tr-2, …). The two differentiation pathways demonstrated here are highlighted with black arrows. b Realizations of stages, as measured by Pearson correlation coefficients between the p(t) expression vector and the stage-specific developmental stage vectors (Supplementary Data 1). Color code for the lines that correspond to the cellular differentiation stages is given at (a). c The first two principal components of the differentiation stages of the hematopoietic hierarchy and the dynamical trajectories of the system. Principal components for the stages are obtained from the developmental stage vectors. PCA trajectories of the two realized pathways are obtained from the p(t) expression vector sampled at Δt = 0.1 frequency. Color code for the time scale of consecutive samples with the timing of the corresponding triggers is shown on the right. In the nomenclature and topology of the differentiation hierarchy, we followed ref. 39. Abbreviations׃ EC endothelial cell, LTR long-term repopulating, HSC hematopoietic stem cell, STR short-term repopulating, CMP common myeloid progenitor, CLP common lymphoid progenitor, GMP granulocyte-macrophage progenitor, MEP megakaryocyte erythroid progenitor, BFU-E burst forming unit erythroid, BFU-meg burst forming unit megakaryocyte, CFU-E colony-forming unit erythroid.
