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| Item Type: | Dataset |
|---|---|
| Title: | A kinetics-based model of hematopoiesis reveals extrinsic regulation of skewed lineage output from stem cells - code & data repository |
| Creators Name: | Grünschläger, Florian, Rodriguez-Correa, Esther, Nizharadze, Tamar, Sedlmeier, Anastasia, Höfer, Thomas, Hübschmann, Daniel, Haas, Simon and Milsom, Mick |
| Abstract: | DESCRIPTION: This repository contains the scripts, source and scRNA-seq data to generate the main and supplementary figures within the manuscript Linking stem cell heterogeneity to reconstitution kinetic through in-depth single-cell analyses of clonally-derived hematopoietic systems. scRNA-seq DATASETS: Single-cell RNA sequencing data derive from five single-HSC-derived murine hematopoietic systems, as well as two polyclonal controls. The resulting clonally-resolved hematopoietic bone marrow atlas (scBM_atlas.rds) consists of 76,863 high-quality cells and covers all major hematopoietic cell types, including differentiation tracks (slingshot.rds) from the most immature HSCs to all lineage-committed progenitors (HSPCs.rds) and their continued maturation into blood and immune cells. MANUSCRIPt SOURCE CODE AND TABULAR DATA: This folder contains the code and manuscript source data for the manuscript. QUICK START: SETTING UP YOUR R PROJECT: To ensure all scripts run correctly, you must set up your R Project (.Rproj) in the root directory of this repository. The scripts are written assuming that the "Manuscript" and "scRNA-seq Data" folders are located directly inside your working directory, i.e. the project folder should look like this: My_Analysis/ <-- R Project Root (WD) ├── My_Analysis.Rproj ├── Manuscript/ └── scRNAseqData/ |
| Source: | Zenodo |
| Publisher: | CERN |
| Date: | April 2026 |
| Official Publication: | https://doi.org/10.5281/zenodo.14497705 |
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