Transcriptional profiling of mouse prostate tumors with conditional mutations in the Pten, Apc, or Tgfbr2 genes

We report the changes in gene expression in mouse prostate comparing normal wild type prostate to tumors generated by Cre mediated deletion of Pten or Apc, either with or without deletion of Tgfbr2. Pten single mutant tumors were isolated at either 8 weeks or 22 weeks of age, with high grade prostate intraepithelial neoplasia (HGPIN) as the main phenotype. Pten;Tgfbr2 double mutants were isolated at 8 weeks (primarily HGPIN), or at 11-14 weeks with extensive locally invasive cancer. Apc single mutants were isolated at 36 weeks old with adenosquamous HGPIN, or at 21-24 weeks of age for the Apc:Tgfbr2 double mutants, which had adenosquamous carcinoma. Ages for the two double mutant groups were based on initial signs of excess tumor burden. Wild type control prostates were isolated at around 20 weeks of age. Ventral prostates were isolated rapidly and frozen for RNA isolation. Where individual lobes were no longer recognizable due to extensive tumor formation, a piece of the tumor was used. We analyzed multiple replicates fro each group by RNA-seq: 8 week Pten and Pten;Tgfbr2, Apc (at 36 weeks) and Apc;Tgfbr2 (at 20 to 24 weeks) samples - three replicates each. Wild type and 22 weeks Pten single mutants - four replicates each. Pten;Tgfbr2 double mutants at 11 to 14 weeks - five replicates.