Single-cell RNA sequencing on single CD45+ immune cells isolated from peripheral blood, lymphnode, ascites, tumour and adjacent normal tissues from six hepatocellular carcinoma patients.

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Dataset ID	Description	Technology	Samples
EGAD00001005960	The immune microenvironment of hepatocellular carcinoma (HCC) is poorly characterized. Combining two single-cell RNA sequencing technologies, we produced transcriptomes of CD45+ immune cells for HCC patients from five immune-relevant sites: tumor, adjacent liver, hepatic lymph node (LN), blood, and ascites. This dataset is part of Smartseq2 data	Illumina HiSeq 4000	17
EGAD00001005961	The immune microenvironment of hepatocellular carcinoma (HCC) is poorly characterized. Combining two single-cell RNA sequencing technologies, we produced transcriptomes of CD45+ immune cells for HCC patients from five immune-relevant sites: tumor, adjacent liver, hepatic lymph node (LN), blood, and ascites. This is the droplet data of this study	Illumina HiSeq 4000	19

Publications	Citations
Immune cell profiling of COVID-19 patients in the recovery stage by single-cell sequencing. Wen W, Su W, Tang H, Le W, Zhang X, Zheng Y, Liu X, Xie L, Li J, Ye J, Dong L, Cui X, Miao Y, Wang D, Dong J, Xiao C, Chen W, Wang H. Cell Discov 6: 2020 31	515
Reconstruction of cell spatial organization from single-cell RNA sequencing data based on ligand-receptor mediated self-assembly. Ren X, Zhong G, Zhang Q, Zhang L, Sun Y, Zhang Z. Cell Res 30: 2020 763-778	75
Increased expression of adenosine A3 receptor in tumor-infiltrating natural killer cells. Bi J, Zheng C, Zheng X. Cell Mol Immunol 18: 2021 496-497	4
T cell receptor beta germline variability is revealed by inference from repertoire data. Omer A, Peres A, Rodriguez OL, Watson CT, Lees W, Polak P, Collins AM, Yaari G. Genome Med 14: 2022 2	20
Deciphering Innate Immune Cell-Tumor Microenvironment Crosstalk at a Single-Cell Level. Sugimura R, Chao Y. Front Cell Dev Biol 10: 2022 803947	5
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	1
SPROUT: spectral sparsification helps restore the spatial structure at single-cell resolution. Wang J, Li S, Chen L, Li SC. NAR Genom Bioinform 4: 2022 lqac069	1
Tumor-specific cholinergic CD4<sup>+</sup> T lymphocytes guide immunosurveillance of hepatocellular carcinoma. Zheng C, Snow BE, Elia AJ, Nechanitzky R, Dominguez-Brauer C, Liu S, Tong Y, Cox MA, Focaccia E, Wakeham AC, Haight J, Tobin C, Hodgson K, Gill KT, Ma W, Berger T, Heikenwälder M, Saunders ME, Fortin J, Leung SY, Mak TW. Nat Cancer 4: 2023 1437-1454	7
Single-cell RNA-sequencing atlas reveals an FABP1-dependent immunosuppressive environment in hepatocellular carcinoma. Tang W, Sun G, Ji GW, Feng T, Zhang Q, Cao H, Wu W, Zhang X, Liu C, Liu H, Huang T, Liu L, Xia Y, Wang X. J Immunother Cancer 11: 2023 e007030	4