Trem2-expressing multinucleated giant macrophages are a biomarker of good prognosis in head and neck squamous cell carcinoma
Trem2-expressing multinucleated giant macrophages are a biomarker of good prognosis in head and neck squamous cell carcinoma
Samples were collected at Gustave Roussy in the routine pathology laboratory. These cohorts were previously reported in two published studies (Marhic et al., Int J Oral Maxillofac Surg, 2021 and Moya-Plana et al., Oral Oncol, 2018). These patients did not receive pre-operative therapy and were thus considered as “treatment-naïve” before the surgery. All patients gave a written informed consent. The Visium Spatial Gene Expression Slide, Visium FFPE Reagent kit, and Visium human transcriptome probe kit (10X Genomics) were used to generate sequencing libraries.  RNA quality was accessed for all samples using the DV200 method. For library construction, 5μm cryosections of 6.5 x 6.5mm, from each FFPE sample, were placed into the four capture areas of the Spatial Transcriptomics slides (10X Genomics). Samples were then deparaffinized, stained, imaged, and decross-linked. Probe hybridization and ligation to RNA were then performed, followed by the single-stranded ligation product release and extension. Libraries were then prepared following the manufacturer's instructions.