Single-cell RNA sequencing on 5063 single T cells isolated from peripheral blood, tumour and adjacent normal tissues from six hepatocellular carcinoma patients.

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001003337	T cells isolated from peripheral blood, tumors and adjacent normal tissues from six hepatocellular carcinoma patients. SmartSeq2 and Tang2009 protocol were used to amplify RNA from single T cells. High depth enables simultaneously expression profiling and TCR assembling.	Illumina HiSeq 2500 Illumina HiSeq 4000	5063
EGAD00001004148	bulk RNA-seq data of the 5 HCC patinets. Single cell RNA seq data of these patients was under the accession number EGAD00001003337	Illumina HiSeq 4000	5
EGAD00001004149	bulk Exome-seq data of the 5 HCC patinets. Single cell RNA seq data of these patients was under the accession number EGAD00001003337	Illumina HiSeq 4000	10

Publications	Citations
Landscape of Infiltrating T Cells in Liver Cancer Revealed by Single-Cell Sequencing. Zheng C, Zheng L, Yoo JK, Guo H, Zhang Y, Guo X, Kang B, Hu R, Huang JY, Zhang Q, Liu Z, Dong M, Hu X, Ouyang W, Peng J, Zhang Z. Cell 169: 2017 1342-1356.e16	1310
Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics. Ludwig LS, Lareau CA, Ulirsch JC, Christian E, Muus C, Li LH, Pelka K, Ge W, Oren Y, Brack A, Law T, Rodman C, Chen JH, Boland GM, Hacohen N, Rozenblatt-Rosen O, Aryee MJ, Buenrostro JD, Regev A, Sankaran VG. Cell 176: 2019 1325-1339.e22	308
A dynamic CD2-rich compartment at the outer edge of the immunological synapse boosts and integrates signals. Demetriou P, Abu-Shah E, Valvo S, McCuaig S, Mayya V, Kvalvaag A, Starkey T, Korobchevskaya K, Lee LYW, Friedrich M, Mann E, Kutuzov MA, Morotti M, Wietek N, Rada H, Yusuf S, Afrose J, Siokis A, Oxford IBD Cohort Investigators, Meyer-Hermann M, Ahmed AA, Depoil D, Dustin ML. Nat Immunol 21: 2020 1232-1243	85
Mapping the functional landscape of T cell receptor repertoires by single-T cell transcriptomics. Zhang Z, Xiong D, Wang X, Liu H, Wang T. Nat Methods 18: 2021 92-99	59
Single-cell differential splicing analysis reveals high heterogeneity of liver tumor-infiltrating T cells. Liu S, Zhou B, Wu L, Sun Y, Chen J, Liu S. Sci Rep 11: 2021 5325	21
Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity. Luo H, Bu D, Shao L, Li Y, Sun L, Wang C, Wang J, Yang W, Yang X, Dong J, Zhao Y, Li F. Genomics Proteomics Bioinformatics 19: 2021 377-393	16
CD161 expression and regulation defines rapidly responding effector CD4+ T cells associated with improved survival in HPV16-associated tumors. Duurland CL, Santegoets SJ, Abdulrahman Z, Loof NM, Sturm G, Wesselink TH, Arens R, Boekestijn S, Ehsan I, van Poelgeest MIE, Finotello F, Hackl H, Trajanoski Z, Ten Dijke P, Braud VM, Welters MJP, van der Burg SH. J Immunother Cancer 10: 2022 e003995	25
Single-Cell Transcriptomics of Liver Cancer: Hype or Insights? Zhang QY, Ho DW, Tsui YM, Ng IO. Cell Mol Gastroenterol Hepatol 14: 2022 513-525	7
Unraveling the Complexity of Liver Disease One Cell at a Time. Atif J, Thoeni C, Bader GD, McGilvray ID, MacParland SA. Semin Liver Dis 42: 2022 250-270	4