DOI: 10.6084/m9.figshare.12957425
title: Metadata and supplementary files supporting the article: The identification and functional analysis of CD8+PD-1+CD161+ T cells in hepatocellular carcinoma

description: Immunotherapy is a powerful therapeutic strategy for end-stage hepatocellular carcinoma (HCC). It is well known that T cells, including CD8+PD-1+ T cells play important roles involving tumor development. However, their underlying phenotypic and functional differences of T cell subsets remain unclear. In this study, the authors constructed single-cell immune contexture involving approximate 20,000,000 immune cells from 15 pairs of HCC tumor and non-tumor adjacent tissues and 10 blood samples (including 5 of HCCs and 5 of healthy controls) by mass cytometry. Single cell RNA seq (scRNA-seq) and functional analysis were applied to explore the function of cells. Multi-color fluorescence staining and tissue microarrays were used to identify the pathological distribution of CD8+PD-1+CD161+/- T cells and their potential clinical implication. The differential distribution of CD8+ T cells subgroups was identified in tumor and non-tumor adjacent tissues.<br><b>Data access</b>: Mass cytometry (CyTOF) and processed single-cell RNA sequencing data (.rda files) are publicly available in the Mendeley Data repository: <b>https://doi.org/10.17632/ttccnvj8sj.5</b>. The raw single-cell RNA sequencing data (fastq files) are publicly available in Genome Sequence Archive (<b>https://bigd.big.ac.cn/gsa/</b>) under the accession number <b>CRX075195</b>. Supplementary figures 1-5 and supplementary tables 3-8 are available in the figshare repository, as part of this data record: <b>https://doi.org/10.6084/m9.figshare.12957425</b>. Patient survival data and tissue microarray data are not publicly available in order to protect patient privacy, but will be made available on reasonable request from the corresponding author, Dr. Hongyang Wang, email address: <b>hywangk@vip.sina.com</b>.<br><b>Study approval and patient consent</b>: This study of human specimen collection was approved by the Ethics Committee of Eastern Hepatobiliary Surgery Hospital. All human tissue and blood samples were obtained from subjects who preoperatively provided written informed consent permitting the investigational use of their tissue.<br><b>Study aims and methodology</b>: In this study, the authors used mass cytometry, scRNA-seq and functional analysis, to explore the function and distribution of CD8+PD-1+CD161+ T cells in hepatocellular carcinoma.Paired tumor and adjacent non-tumor tissues are collected from 15 HCC patients (the clinical characteristics of each patient were listed in Supplementary Table 1) undergoing liver resection in the Eastern Hepatobiliary Surgery Hospital. A total of 10 blood samples from healthy people and HCC patients are obtained through routine physical examination and voluntary donation.Male C57BL/6JCrl mice aged 6-8 weeks were purchased from Model Animal Resource Information Platform (Nanjing, China). Mice were housed under specific pathogen-free conditions at Eastern Hepatobiliary Surgery Hospital. Orthotopic HCC mouse model was built by injecting Hepa1-6 cells (3x106/injection) to left liver lobe of C57BL/6 mouse at 8 week.The following procedures are described in more detail in the published article: mouse experiments, extraction of leukocytes, mass cytometry, data processing, flow cytometry analysis, multiplex immunofluorescence tissue staining and scRNA-seq.<br><b>Data supporting the figures and supplementary figures and tables in the published article</b>: Please see the file <b>Li, Z. et al.xlsx</b> for details on the file names and file formats. This data record includes supplementary tables 3-8, in .<b>xlsx</b> file format, and supplementary figures 1-5, in .<b>pdf </b>file format.<br><b>Software needed to access data:</b> FCS files can be accessed using the FlowJo software. RData and rda files can be accessed using the R software.<br>