GSE175813
Single cell RNA sequencing data of T cells co-cultured with tumor cells
We developed a photosensitive tag (PsT) to label cells that reside in specific areas of interest in (human) primary tissues through specific exposure with violet light, allowing analysis of single cells while preserving their spatial information. As a benchmarking experiment, we used the PsT  to assess transcriptional differences between CD8+ T cells that reside in an area containing tumor cells that do express cognate antigen, or an area of tumor cells that do not express the antigen. Single cell RNA sequencing revealed differential expression of activation markers between CD8+ T cells from antigen-positive or antigen-negative areas, demonstrating the value of the PsT to investigate spatially-induced differences between cells residing in primary tissues. Overall design: single cell transcriptional profiles of CD8+  T cells isolated from areas with antigen-positive or antigen-negative tumor cells. Samples contain exposed ("uncapped") and non-exposed ("capped") CD8+ T cells from cocultures in which cells residing in antigen-positive (Ag+) or antigen-negative (Ag-) tumor areas were specifically exposed. Capping status of each cell was defined by flow cytometry and is specificied in "M_metadata_ann.txt" file. Please note that additional files (containing the code and annotated data objects etc. as described in the readme.txt) have been added on Jun 9, 2021.