Table 1 The selected genes and their functions

Cell cycle regulators

APC, AXIN1, CCNA2, CCND1, CCND2, CCNE1, CDK1, CDC42, EP300, FGF1, FGF2, FGF3, FGF4, MYC, NOTCH2, PARD6A, RBI

Chromosome and chromatin modulators

KAT2A, HDAC2, KAT8, KAT7, RB1, TERT

Genes regulating symmetric/asymmetric cell division

DHH, NOTCH1, NOTCH2, NUMB, PARD6A

Self-renewal markers

HSPA9, KAT8, KAT7, NEUROG2, SOX1, SOX2

Cytokines and growth factors

BMP1, BMP2, BMP3, CXCL12, FGF1, FGF2, FGF3, FGF4, GDF2, GDF3, IGF1, JAG1

Genes regulating cell–cell communication

DHH, DLL1, GJA1, GJBI, GJB2, JAG1

Cell adhesion molecules

APC, BGLAP, CD4, CD44, CDH1, CDH2, COL9A1, CTNNA1, CXCL12, NCAM1

Metabolic markers

ABCG2, ALDH1A1, ALDH2, FGFR1

Stem cell differentiation markers

Embryonic Cell Lineage markers: ACTC1, ASCL2, FOXA2, PDX1 (IPF1), ISL1, KRT15, MSX1, MYODI, T

Hematopoietic Cell Lineage Markers: CD3D, CD4, CD8A, CD8B, MME

Mesenchymal Cell Lineage Markers: ACAN (AGC1), ALP1, BGLAP, COL1A1, COL2A1, COL9A1, PPARG

Neural Cell Lineage Markers: CD44, NCAM1, SIGMAR1, S100B, TUBB3

Signaling pathways-portal or stem cell maintenance

Notch Pathway: DLL1, DLL3, DTX1, DTX2, DVL1, EP300, KAT2A, HDAC2, JAG1, NOTCH1, NOTCH2, NUMB

Wnt Pathway: ADAR, APC, AXIN1, BTRC, CCND1, FRAT1, FZD1, MYC, PPARD, WNT1