Skip to main content

Table 1 Minimal combinations of reprogramming determinant genes obtained after the application of our method in five different biological examples for specific transition between attractors corresponding to cellular phenotypes

From: Detecting cellular reprogramming determinants by differential stability analysis of gene regulatory networks

Example

Transitions

DEPFCs

Minimal combinations of reprogramming determinant genes

T-helper

Th2-Th1

4

GATA3, T-bet

EMT

Epithelial-Mesenchymal

12

SNAI1, ZEB2, MIR203

HL60

HL60-Neutrophil

1

IL1B, CASP1, IRF1

iHEP

Fibroblast-Hepatocyte

2

FOXA2:PPARGC1A,NR5A2:UCP2, HNF1A:PPARGC1A,HNF4A:NR5A2, NR5A2:PPARGC1A, FOXA2:HNF4A, HNF1A:UCP2, AGT:NR5A2,AGT:FOXA2,FOXA2:UCP2, AGT:HNF1A, HNF1A:HNF4A

iCM

Fibroblast-Cardiomyocyte

2

GATA4, MEF2C

iPSCS

Fibroblast-iPSCS

7

MYC:POU5F1:SOX2, POU5F1:SOX2:mir-107,MYB:POU5F1:SOX2, ATF3:POU5F1:SOX2,POU5F1:SOX2:TP53,

  1. Genes in bold correspond with those whose perturbation are represented in Figure 5.
  2. Alternative combinations of reprogramming determinant genes are separated by comma. Combinations of reprogramming determinants genes perturbed in Figure 6 are in bold.