Table I Epithelial and mesenchymal cell marker genes used in transcriptome analysis
Epithelial cell marker genes
  1. E-cadherin (CDH1): GeneID, 999; chromosome, 16; location, 16q22.1

  2. Keratin 18 (KRT18): GeneID, 3875; chromosome, 12; location, 12q13

  3. Keratin 8 (KRT8): GeneID, 3856; chromosome, 12; location, 12q13

  4. Keratin 5 (KRT5): GeneID, 3852; chromosome, 12; location, 12q12-q13

  5. Keratin 7 (KRT7): GeneID, 3855; chromosome, 12; location, 12q12-q13

  6. Keratin 19 (KRT19; CYFRA 21-1): GeneID, 3880; chromosome, 17; location, 17q21.2

  7. Cytokeratin 20 (KRT20): GeneID, 54474; chromosome, 17; location, 17q21.2

  8. Mucin 1, cell surface-associated (MUC1; EMA): GeneID, 4582; chromosome, 1; location, 1q21

  9. CTNNB1: GeneID, 1499; chromosome, 3; location, 3p21

  10. CD44 molecule (Indian blood group) (CD44v6; CD44): GeneID, 960; chromosome, 11; location, 11p13

  11. Serpin peptidase inhibitor, clade B (ovalbumin), member 3 (SERPINB3; SCC-1): GeneID, 6317; chromosome, 18; location, 18q21.3

  12. Serpin peptidase inhibitor, clade B (ovalbumin), member 4 (SERPINB4; SCC-2): GeneID, 6318; chromosome, 18; location, 18q21.3

  13. Transforming growth factor, α (TGFA): GeneID, 7039; chromosome, 2; location, 2p13

  14. Carcinoembryonic antigen-related cell adhesion molecule 1 (biliary glycoprotein; CEACAM1): GeneID, 634; chromosome, 19; location, 19q13.2

  15. Carcinoembryonic antigen-related cell adhesion molecule 3 (CEACAM3): GeneID, 1084; chromosome, 19; location, 19q13.2

  16. Carcinoembryonic antigen-related cell adhesion molecule 5 (CEACAM5): GeneID, 1048; chromosome, 19; location, 19q13.1-q13.2

  17. Carcinoembryonic antigen-related cell adhesion molecule 7 (CEACAM7): GeneID, 1087; chromosome, 19; location, 19q13.2

  18. α-Fetoprotein (AFP): GeneID, 174; chromosome, 4; location, 4q11-q13

  19. Mucin 16, cell surface-associated (MUC16; CA-125): GeneID, 94025; chromosome, 19; location, 19p13.2

  20. CD34: GeneID, 947; chromosome, 1; location, 1q32

  21. met proto-oncogene (hepatocyte growth factor receptor; MET): GeneID, 4233; chromosome, 7; location, 7q31

  22. Tight junction protein 1 (zona occludens 1) (ZO-1; TJP1): GeneID, 7082; chromosome, 15; location, 15q13

  23. fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor; VEGFR1; FLT1): GeneID, 2321; chromosome, 13; location, 13q12

  24. Vascular endothelial growth factor A (VEGFA): GeneID, 7422; chromosome, 6; location, 6p12

  25. Mesothelin (MSLN): GeneID, 10232; chromosome, 16; location, 16p13.3

Mesenchymal cell marker genes
  1. N-cadherin: GeneID, 1000; chromosome, 18; location, 18q11.2

  2. Vimentin: GeneID, 7431; chromosome, 10; location, 10p13

  3. Desmin: GeneID, 1674; chromosome, 2; location, 2q35

  4. Actin, α2, smooth muscle, aorta (α-SMA): GeneID, 59; chromosome, 10; location, 10q23.3

  5. Actinin, α1 (α-Actin): GeneID, 87; chromosome, 14; location, 14q24.1-q24.2, 14q24, 14q22-q24

  6. Fibronectin 1 (FN1): GeneID, 2335; chromosome, 2; location, 2q34

  7. Synemin, intermediate filament protein (SYN): GeneID, 23336; chromosome, 15; location, 15q26.3

  8. Bone morphogenetic protein 7 (BMP-7): GeneID, 655; chromosome, 20; location, 20q13

  9. Collagen, type I, α2 (COL1A2): GeneID, 1278; chromosome, 7; location, 7q22.1

  10. Collagen, type I, α1 (COL1A1): GeneID, 1277; chromosome, 17; location, 17q21.33

  11. flightless I homolog (Drosophila) (Fli1): GeneID, 2314; chromosome, 17; location, 17p11.2

  12. Nestin (NES): GeneID, 10763; chromosome, 1; location, 1q23.1

  13. Antigen p97 (melanoma-associated) identified by monoclonal antibodies 133.2 and 96.5 (HMB45; MFI2): GeneID, 4241; chromosome, 3; location, 3q28-q29

  14. Enolase 2 (γ, neuronal) (NSE; ENO2): GeneID, 2026; chromosome, 12; location, 12p13

  15. S100 calcium-binding protein A1 (S100A1): GeneID, 6271; chromosome, 1; location, 1q21

  16. S100 calcium-binding protein B (S100B): GeneID, 6285; chromosome, 21; location, 21q22.3

  17. Myoglobin (MB): GeneID, 4151; chromosome, 22; location, 22q13.1

  18. Secreted phosphoprotein 1 (osteopontin): GeneID, 6696; chromosome, 4; location, 4q21-q25

  19. Synaptophysin (SYP): GeneID, 6855; chromosome, X; location, Xp11.23-p11.22

  20. Somatostatin (SST): GeneID, 6750; chromosome, 3; location, 3q28