RNA and TCR Sequencing Characterized Cytotoxic T Cells and TCR Clonality in Organ Transplant Recipients with Squamous Cell Carcinoma

This dataset was collected to show that there is a decline in cytotoxic T cells and TCR clonality in organ transplant recipients (OTRs) with squamous cell carcinoma (SCC). In this study, 5 SCC tumor samples and 6 transplant-associated SCC (TSCC) tumor samples were analyzed. Among SCC samples, the male to female ratio was 3 to 2 and the mean patient age was 81 years. Among TSCC samples, the male to female ratio was 1 to 5 (TSCC2 and TSCC3 were obtained from the same patient) and the mean patient age was 65 years. OTRs had either a liver or kidney transplant and they were on 2 or 3 immunosuppression drugs, which included combinations of mycophenolate, tacrolimus, sirolimus, cyclosporine, azathioprine and/or prednisone.

The dataset includes RNA and TCR sequencing data as well as supplementary data tied to the publication. Supplementary data contains data on patient and tumor characteristics, total clonotypes and total VDJ sequencing reads in cutaneous SCC tumors from immunocompetent and immunocompromised patients, percentage of known antigen versus neoantigen among the top 10 clonotypes in cutaneous SCC tumors from immunocompetent and immunocompromised patients, and putative antigens of the top 10 clonotypes in cutaneous SCC tumors from immunocompetent and immunocompromised patients based on McPAS analysis.