Single-Cell, Single-Nucleus and Spatial RNA Sequencing of the Human Liver Identifies Hepatic Stellate Cell and Cholangiocyte Heterogeneity
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Dataset information
Summary
Comparison of single cell RNAseq and single nucleus RNAseq on four healthy human liver caudate lobes, with cell-types validated using one slice of a fifth healthy human for VISIUM Spatial Transcriptomics. Raw UMI count tables can be found here: https://figshare.com/projects/Human_Liver_SC_vs_SN_paper/98981 Processed Seurat Objects can be found here: https://www.dropbox.com/sh/sso15ehqmrrh6mk/AACKHOsSlZW0_Zy9cbCkOmMfa?dl=0
Comparison of single cell RNAseq and single nucleus RNAseq on four healthy human liver caudate lobes, with cell-types validated using one slice of a fifth healthy human for VISIUM Spatial Transcriptomics. Raw UMI count tables can be found here: https://figshare.com/projects/Human_Liver_SC_vs_SN_paper/98981 Processed Seurat Objects can be found here: https://www.dropbox.com/sh/sso15ehqmrrh6mk/AACKHOsSlZW0_Zy9cbCkOmMfa?dl=0
Overall design
Four healthy human liver caudate lobes were removed prior to transplantation into living recipients. A potion of each lobe was frozen then nuclei were extracted and sequenced with 10x Chromium while another portion was dissociated immediately while still fresh and isolated cells were sequenced with 10x Chromium.
Four healthy human liver caudate lobes were removed prior to transplantation into living recipients. A potion of each lobe was frozen then nuclei were extracted and sequenced with 10x Chromium while another portion was dissociated immediately while still fresh and isolated cells were sequenced with 10x Chromium.
Technology
10x Visium
10x Visium
Platform
Illumina HiSeq 2500
Illumina HiSeq 2500
Species
Homo sapiens
Tissues
Liver
Liver
Citation
Andrews TS, Atif J, Liu JC, Perciani CT et al. Single-Cell, Single-Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity. Hepatol Commun 2021 Nov 18. PMID: 34792289
Andrews TS, Atif J, Liu JC, Perciani CT et al. Single-Cell, Single-Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity. Hepatol Commun 2021 Nov 18. PMID: 34792289
Submission date: 2021-10-06Update date: 2021-12-02
Sample number: 1
Contributors
Tallulah S Andrews; Jawairia Atif; Jeff C Liu; Sonya MacParland
Contact: [email protected]
Accessions
GEO Series Accessions:
GSE185477