Time-resolved single-cell RNA-seq using scSLAM-seq and GRAND-SLAM

DOI10.5281/zenodo.3475604Zenodo3475604MaRDI QIDQ6690119FDOQ6690119

Dataset published at Zenodo repository.

Publication date: 7 October 2019

Copyright license: Creative Commons Attribution 4.0 International

This is the example data for the protocol Time-resolved single-cell RNA-seq using scSLAM-seq and GRAND-SLAM. The test data comprises sequencing data from 12 different cells. Five of them in mock condition with 4sU, five infected with MCMV with 4sU and 2 uninfected cells without 4sU. For each sample, paired-end sequencing was conducted and therefore two files exist for each sample. The files can be found at data/fastq. The reads should be mapped against the mouse genome and the MCMV genome, which are located in data/genome. The sequence is in fasta-fomat and the features in gtf-format.The scripts conducting quality control, read mapping and GRAND-SLAM analysis can be found in the processing folder. For each computational step in this protocol there is a shell script for running the necessary steps. Executing all scripts will reproduce the analysis of our test data

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