Fig. 4: CLADES captures the key dynamics of mouse hematopoietic system. | Nature Communications

Fig. 4: CLADES captures the key dynamics of mouse hematopoietic system.

From: CLADES: a hybrid NeuralODE-Gillespie approach for unveiling clonal cell fate and differentiation dynamics

Fig. 4: CLADES captures the key dynamics of mouse hematopoietic system.The alternative text for this image may have been generated using AI.

a UMAP illustration of the mouse hematopoietic dataset, which contains three time points and 22 manually defined populations (Baso - Basophil, DC - Bendritic cell, Eos - Eosinophil, Ery - Erythroid, Ly - Lymphoid, Meg - Megakaryocyte, Mono- Monocyte, Neu - Neutrophil, prog - progenitor, pDC - Plasmacytoid dendritic cells). b We defined 13 meta-clones based on the time-state-dependent number of barcoded cells. c The putative transition directions were given by the PAGA graph with expert curation, which acted as a guide for the model. d Left panel: the overview of the estimated proliferation and differentiation rates across all evaluation time points. Right panel: the weighted rates among meta-clones resemble the patterns of the whole dataset. e (i) Lineage realization for each meta-clone given a prog_2, (ii) lineage realization for each meta-clone given a prog_3.

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