Figure 7. Expression levels of epithelial mesenchymal transition genes were higher under EpiC as compared to CRC culture conditions.

(A) Dendrogram and heatmap of unsupervised hierarchical clustering of FPKM values of epithelial mesenchymal transition (EMT)-related genes from CYP19A1^p53−/+, Brca1^{−/+/p53−/+} 1, and Brca1^{−/−/p53−/+} EpiC and CRC cancer cell cultures and allografts. *One EpiC/CRC pair, **Two EpiC/CRC pairs, ***Three EpiC/CRC pairs, p<0.05, Cuffdiff_pval. Msn: Moesin. Cdh2: Cadherin 2, Type 1. Cald1: Caldesmon 1. Tgfb3: Transforming growth factor beta 3. Wnt5b: Wnt5b: Wingless-Type MMTV Integration Site Family, Member 5B. Serpine1: Serpin Peptidase Inhibitor, Clade E (Nexin, Plasminogen Activator Inhibitor Type 1), Member 1. Itgav: Integrin, Alpha V. Tmem132a: Transmembrane Protein 132A. Tgfb3: Transforming growth factor beta 3. Steap: Six-Transmembrane Epithelial Antigen Of Prostate 2. Tgfbr1: Transforming growth factor beta receptor 1. Bmp1: Bone Morphogenetic Protein 1. Col5a2: Collagen, Type V, Alpha 2. Col1a2: Collagen, Type I, Alpha 2. Vcan: Versican. Timp1: TIMP Metallopeptidase Inhibitor 1. Wnt5a: Wingless-Type MMTV Integration Site Family, Member 5A. Tgfb1: Transforming growth factor beta 1. Mmp3: Matrix Metallopeptidase 3. Foxc2: Forkhead Box C2. Tgfbr3: Transforming growth factor beta receptor 3. Sparc: Secreted Protein, Acidic, Cysteine-Rich (Osteonectin). Snai1: Snail Family Zinc Finger 1. Zeb2: Zinc Finger E-Box Binding Homeobox 2. Col3a1: Collagen, Type III, Alpha 1. Twist1: Twist Family BHLH Transcription Factor 1. Fn1: Fibronectin 1. Itga5: Integrin, Alpha 5 (Fibronectin Receptor, Alpha Polypeptide). Mmp2: Matrix Metallopeptidase 2. Mmp9: Matrix Metallopeptidase 9. Zeb1: Zinc Finger E-Box Binding Homeobox 1. Gng 1: Guanine Nucleotide Binding Protein (G Protein), Gamma 11. Tcf4: Transcription Factor 4. Vim: Vimentin. Igfbp4: Insulin-Like Growth Factor Binding Protein 4. Tgfbr2: Transforming growth factor beta receptor 2. Snai2: Snail Family Zinc Finger 2. Tmeff1: Transmembrane Protein With EGF-Like And Two Follistatin-Like Domains 1. Ahnak: AHNAK Nucleoprotein. Vps13a: Vacuolar Protein Sorting 13 Homolog A. (B) Bar graphs illustrating relative FPKM (Fragments Per Kilobase of transcript per Million mapped) reads of Tgfbr3 in EpiC (black) and CRC (grey) in primary CYP19A1^p53−/+, Brca1^{−/+/p53−/+} 1, and Brca1^{−/−/p53−/+} cancer cell cultures. *p<0.05, Cuffdiff_pval. (C) Images showing normalized read coverage across the Tgfbr3 locus viewed through the Integrative Genomics Viewer from CYP19A1^p53−/+, Brca1^{−/+/p53−/+} 1, and Brca1^{−/−/p53−/+} EpiC (black) and CRC (grey) cultures. (D) Representative images of immunohistochemistry (IHC) for TGFBR3 in CYP19A1^p53−/+, Brca1^{−/+/p53−/+} 1, and Brca1^{−/−/p53−/+} cell pellets prepared from EpiC and CRC cultures. Insets bottom left show magnified images of cells indicated by arrows in larger images. Black arrows indicate representative cells with detection of membrane-localized TGFBR3. IHC images taken at 40_X. Size bars= 10μM.