Code for the Manuscript "Harnessing liver CD8 T cell progeny to control chronic Hepatitis B Virus infection" by Vincent Steinbacher, Annika Schneider, Carlos Ramirez, Katrin Manske, Sainitin Donakonda, Ariane Eceiza, Anna Fürst, Mirta Jimenez, Artun Bülbül, Kathrin Heim, Immanuel Andrä, Shirin Nkongolo, Markus Muckenhuber, Christine Wurmser, Philippa Meiser, Anna Kosinska, Yiqi Huang, Karsten Rippe, Georg Gasteiger, Andreas Pichlmair, Stefan Lienenklaus, Adam Gehring, Patrick Bertolino, Robert Thimme, Mathias Heikenwälder, Andre Boonstra, Harry Janssen, Axel Kallies, Dietmar Zehn, Annette Oxenius, Ulrich Kalinke, Veit R. Buchholz, Jan Böttcher, Ulrike Protzer, Maike Hofmann, Carl Herrmann, Percy Knolle, Dirk Wohlleber
This repository contains various R scripts used to perform single-cell RNA-seq datasets
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scRNA Sequencing Analysis
Figure 4g This folder contains the pseudotime analysis R script
Figure4k This folder contains the featureplot R script.
Figure4n This folder contains the UMAP plot R script
Figure4o-p This folder contains the R script for progenitor signature analysis of the HBV dataset.
Figure4q-r This folder contains the R script for Mybl2 signature analysis of the HBV dataset.
Extended figure4g This folder contains the R script of the clustered dot plot.
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Flow Cytometry tSNEs
TSNE Figure 1 This folder contains an R Script for generating the plots in Figure1l and supplementary figure 1l.
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Datasets used in this study are deposited on the Gene Expression Omnibus (GEO). https://www.ncbi.nlm.nih.gov/geo/ Human HBV scRNA Sequencing Dataset: Accession ID: GSE216314 Mouse CD45.1 Cor93 CD8 T cells Dataset: GSE303023 and