Fig. 5: Multi-omic integrated analysis of scRNA-seq and scATAC-seq cardiac progenitors.
From: Generalized and scalable trajectory inference in single-cell omics data with VIA
a VIA graph for scRNA-seq data only and (b) scATAC-seq data only. c Gene-TF pair expression along VIA inferred pseudotime for each CM lineage (see Supplementary Fig. 19 for Top five most differentially expressed genes for each VIA node along each lineage as well as node-level TF motif accessibility) (d) schematic of data integration of the individual sc-modalities (e) scRNA-seq and scATAC-seq data of Isl1+ Cardiac Progenitors (CPs) integrated using Seurat3 before PHATE. Colored by annotated cell-type, and experimental modality (f) Colored by VIA pseudotime with VIA-inferred trajectory towards Endothelial and Myocyte lineages projected on top (g) Accuracy of detecting the CM and Endo lineages in the individual and integrated data. This is challenging for other methods which either detect several early/intermediate stages or merge cell fates (see outputs for these methods in Supplementary Figs. 20,21).
