Unveiling gene perturbation effects through gene regulatory networks inference from single-cell transcriptomic data
Fig 6
Human PSC dataset preprocessing.
A. Studied biological system [31]: temporal dynamics of human PSC differentiation, spanning pluripotency, mesendoderm, and definitive endoderm. The dataset is based on Smart-seq scRNA-seq. Cells were sampled at six time points: 0h (n = 92), 12h (n = 102), 24h (n = 66), 36h (n = 172), 72h (n = 138), and 96h (n = 188). B. PCA of the log-normalized dataset. Each point represents a cell, coloured by clustering label. C. PCA of the dataset, with cells coloured by pseudotime. The pseudotime ranges from the value of 0 to the final value of 183.58. D. PCA visualisation of three key genes (Pou5f1, T, and Gata4) in the log-normalized scRNA-seq dataset. Each point represents an individual cell, coloured by the normalized expression of the respective gene. E. Mini-Bulk gene expression patterns in pseudotime for three representative genes, Pou5f1, T, and Gata4.