Transcriptomic profiling of MC38 tumor cells on murine MC38 liver metastasis sections by NanoString GeoMX DSP

To study how targeting Glut1 in CAFs influences the transcritome of adjacent cancer cells, MC38 adjacent to control CAFs and Glut1-deficient CAFs were subjected to spatial transcriptomic profiling with the NanoString GeoMx DSP Two months old Glut1F/F mice (control mice) and Glut1F/FPRβ-CreERT2 mice (conditional Glut1 knockout mice) were received implantation of MC38 murine colorectal cancer cells by portal vein injection. Cryo-sections of MC38 liver metastases were fixed with formalin, hybridized with NanoString mouse whole transcriptome atlas, followed by immunofluorescence staining with anti-desmin to label CAFs, anti-CD45 for immune cells, and SYTO 13 for cell nuclei. Regions of Interest (ROIs) were selected for data requisition and analysis. CAFs (Desmin+ CD45-) within a ROI were collected for transcriptomic profiling and MC38 cancer cells (Desmin- CD45-) within a same ROI were collected for transcriptomic profiling as well. Segments 17-20 were ROIs from Glut1F/FPRβ-CreERT2 mice and 21-26 were from Glut1 F/F mice. 20 sequencing data were generated for MC38 cancer cells due to dual-indexing primers-based sequencing.