Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection
Authors/Creators
- 1. Medizinische Klinik und Poliklinik I University Hospital Ludwig-Maximilian University Munich, Germany
- 2. Department of Informatics, Ludwig-Maximilians-Universität München , Germany
- 3. Anthropology and Human Genomics, Faculty of Biology, Ludwig-Maximilians University Munich
Description
scRNA-seq data
Data were processed using cellranger v 4.0.0 with the refdata-gex-GRCh38-2020-A reference.
h5files.zip: contains all h5-Files of raw feature-barcode counts (e.g. 20094_0001_A_B_raw_feature_bc_matrix.new.h5 )
raw_feature_bc_matrices.zip: contains the same data as h5files.zip, but also in mtx-format.
covid_object_ncomms.RDS: contains the Seurat file with which all analyses were conducted.
samples2condition.df: text file containing sample to condition information
Bulk RNA-seq
covid_bulk.zip contains the count matrices extracted from the zUMIs runs for the bulk cohort.
nasal_swabs.zip contains the count matrices extracted from the zUMIs run for the nasal swab cohort.
The extracted count matrices were then used with the bulk analysis scripts provided with the source code.
Source Code
All source code for the publication is available from: https://github.com/mjoppich/covidSC or from tagged releases: https://github.com/mjoppich/covidSC/releases/tag/ncomms
When using any of these data, please cite:
Pekayvaz et al., Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection, Nature Communications 2022
Files
covid_bulk.zip
Files
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