Liver Cell Atlas


On this website you will find the different published liver single cell RNA-sequencing datasets generated in the lab of Charlotte Scott from the VIB-UGent Centre for Inflammation Research, Belgium. Here you will be able to fully interrogate the datasets for expression of your favourite genes or proteins (when CITE-seq was performed). To search for a gene simply enter the official gene name. To search for a protein please click here to see the specific names to use for the different markers included.



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In this publication we have performed CITE-seq analysis on total CD45+ cells isolated from the livers of mice fed a standard diet (SD) or western diet (WD; fat, cholesterol and sugar) for 12, 24 and 36 weeks. In addition, we also zoomed in on the monocyte and macrophage clusters in a separate UMAP to be able to more fully interrogate the data. We also performed single cell RNA sequencing analysis of the CD45- cells isolated from the livers of the mice fed the SD or WD for 24 and 36 weeks. All datasets as presented in the publication are available here for interrogation. Genes and proteins can be searched and overall expression in the UMAPs as well as expression per cluster and in specific clusters over the course of the feeding can be displayed.


Osteopontin Expression Identifies a Subsetof Recruited Macrophages Distinctfrom Kupffer Cells in the Fatty Liver. Anneleen Remmerie, Liesbet Martens, Tinne Thoné, Angela Castoldi, Ruth Seurinck, Benjamin Pavie, Joris Roels, Bavo Vanneste, Sofie De Prijck, Mathias Vanhockerhout, Mushida Binte Abdul Latib, Lindsey Devisscher, Anne Hoorens, Johnny Bonnardel, Niels Vandamme, Anna Kremer, Peter Borghgraef, Hans Van Vlierberghe, Saskia Lippens, Edward Pearce, Yvan Saeys, and Charlotte L. Scott. Immunity, 2020.
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These results were obtained in the team of Charlotte Scott at the VIB inflammation research center. We hope you will find this resource useful and we would be happy to hear about your experiences and suggestions.

labFlask Charlotte Scott, PhD logo twitter
Professor - Group leader
Laboratory of Myeloid Cell Biology in Tissue Damage and Inflammation
VIB Inflammation Research Center (IRC)
Universiteit Gent
Technologiepark 71, 9052 Zwijnaarde, Belgium
Tel: +32 933 13740
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