Neonatal liver niches program T cell tolerance

Zenodo (CERN European Organization for Nuclear Research) 2026 Dataset Open access

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Authors: Stange, Eva-Lena, Nguyen, Trong Hieu, Mendoza, Dustyn, Lobo Gomes, Aiara, Kohlhepp, Marlene Sophia, Pes, Jonas, Al Bounny, Shahed, Brueck, Julian, Cetiner, Yunus, Ugur, Milas, Kalbermatter, Cristina, Lopez-Scarim, Jarrett
+14 more Dupont, Aline, Heckmann, Julia, Silva Sanches, Aaron, Kuppe, Christoph, Pabst, Oliver, Clavel, Thomas, Viemann, Dorothee, Rosshart, Stephan P., Cerovic, Vuk, Ganal-Vonarburg, Stephanie Christine, Guillot, Adrien, Billerbeck, Eva, Hornef, Mathias W., Torow, Natalia
DOI: 10.5281/zenodo.17940608
Cited by: 0

Abstract

Single cell data Raw FASTQ data has been deposited in ENA (accession code: PRJEB104713). We ran the 10X CellRanger pipeline with default configuration to process the raw data. The .tar.gz contains standard output of the CellRanger pipeline for all three libraries: GEX (barcode, matrix, features file), VDJ (contigs file) and FB. These data can be directly read into Seurat (in R) or AnnData object (in python) for further downstream analysis. Spatial transcriptomics data The raw 10X Xenium data are provided in two .tar.gz files (neonate and adult samples) and the processed data in two others. We used the SPARROW pipeline to analise the data, all steps are described in the publication. The output is available in a zarr store.

Publication details

Journal / source
Zenodo (CERN European Organization for Nuclear Research)
Publication date
20 July 2026
Document type
Dataset