Spatial transcriptomics of homo sapiens: tertiary lymphoid structures (TLS) in pancreatic ductal adenocarcinoma (PDAC) immunotherapy treated
Visium spatial transcriptomics for frozen and formalin-fixed and paraffin embedded (FFPE) samples was performed using the 10x Genomics approach. The pancreatic cancer samples were collected from surgical specimens from patients that underwent neoadjuvant immunotherapy with GVAX, cyclophosphamide, nivolumab, and 41BB agonist as monotherapies or in combinations. The treated samples were collected during surgery after pathology examination and immediately preserved to be frozen or fixed. The frozen specimens were embedded in optimal cutting temperature compound (OCT) and the fixed samples were FFPE preserved. For spatial transcriptomics, the samples were sectioned and mounted on the Visium slides, following the manufacturer's instructions. The sequencing libraries and sequencing features also followed instructions provided by 10x Genomics