GSM8809852: mouse MC38 tumor treated with aCD40; Mus musculus; OTHER
Organ fixation for paraffin embedding and microtome sectioning: Mice were anesthetized by intraperitoneal injection of ketamine , xylazine , and acepromazine and transcardially perfused with cold PBS. Organs were placed in 10% formalin and transferred in 70% ethanol after 24 hours before embedding in paraffin blocks. Microtome sections (2-2.5 µm) of each organ were cut for H&E staining and immunohistochemistry staining. Microtome sections on regular glass slides were deparaffinized and stained for H&E as described by 10X Genomics. Regions of interest on the tissue sections were chosen using H&E staining and aligned in the tissue slide cassette 6.5 mm. After destaining and decrosslinking, sections were immediately subjected to probe hybridization overnight followed by probe ligation, release and extension and spatial library construction as described in the user guide Visium HD Spatial Gene Expression Reagents Kits. Ready-made libraries were sequenced at the Functional Genomics Center Zurich (FGCZ) using paired end 150 bp read configuration.