bulk RNA-seq of the 5 HCC patients which also have the single cell T cell RNA-seq data

EGAGenomicsN/Ahttps://ega-archive.org/datasets/EGAD000010041485EGA dataset EGAD00001004148EGAbulk RNA-seq of the 5 HCC patients which also have the single cell T cell RNA-seq dataSystematic interrogation of tumor-infiltrating lymphocytes is key to the development of immunotherapies and the prediction of their clinical responses in cancers. Here, we perform deep single-cell RNA sequencing on 5,063 single T cells isolated from peripheral blood, tumor, and adjacent normal tissues from six hepatocellular carcinoma patients. The transcriptional profiles of these individual cells, coupled with assembled T cell receptor (TCR) sequences, enable us to identify 11 T cell subsets based on their molecular and functional properties and delineate their developmental trajectory. Specific subsets such as exhausted CD8+ T cells and Tregs are preferentially enriched and potentially clonally expanded in hepatocellular carcinoma (HCC), and we identified signature genes for each subset. One of the genes, layilin, is upregulated on activated CD8+ T cells and Tregs and represses the CD8+ T cell functions in vitro. This compendium of transcriptome data provides valuable insights and a rich resource for understanding the immune landscape in cancers.Landscape of Infiltrating T Cells in Liver Cancer Revealed by Single-Cell Sequencing.Zheng Chunhong C, Zheng Liangtao L, Yoo Jae-Kwang JK, Guo Huahu H, Zhang Yuanyuan Y, Guo Xinyi X, Kang Boxi B, Hu Ruozhen R, Huang Julie Y JY, Zhang Qiming Q, Liu Zhouzerui Z, Dong Minghui M, Hu Xueda X, Ouyang Wenjun W, Peng Jirun J, Zhang Zemin Zfalseena-DATASET-BIOPIC-06-06-2018-15:24:14:117-163 - samplesbulk RNA-seq data of the 5 HCC patinets. Single cell RNA seq data of these patients was under the accession number EGAD000010033372018-06-11 16:51:02EGAD00001004148960628622514EGAC00001000551EGAS00001002072