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Series GSE202880 Query DataSets for GSE202880
Status Public on Dec 20, 2022
Title Labelling transcriptional response to dissociation using SLAMseq
Organisms Danio rerio; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Transcriptional response to dissociation is known to cause artefacts in single cell data sets. We used 4sU to label newly made transcripts during dissociation in order to to later remove them from the data set
Overall design 10mM 4sU was added to the dissociation buffer while the samples were enzymatically dissociated for 30 min. A 4sU injected control was added to the zebrafish samples to identify high turnover genes
Contributor(s) Neuschulz A, Badillo-Lisakowski V, Gomez-Argente I
Citation(s) 36573354
Submission date May 12, 2022
Last update date Mar 22, 2023
Contact name Anika Neuschulz
Organization name Max-Delbrück-Center for Molecular Medicine
Lab Junker
Street address Hannoversche Strasse 28
City Berlin
ZIP/Postal code 10115
Country Germany
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL20828 Illumina NextSeq 500 (Danio rerio)
Samples (26)
GSM6135012 adult cardiomyocytes, 30 min 4sU, rep1
GSM6135013 adult cardiomyocytes, no 4sU, rep1
GSM6135014 adult cardiomyocytes, 30 min 4sU, rep2
This SubSeries is part of SuperSeries:
GSE202949 Measuring stress response upon tissue dissociation using SLAMseq in bulk and single cells
BioProject PRJNA837586

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Supplementary file Size Download File type/resource
GSE202880_RAW.tar 15.8 Mb (http)(custom) TAR (of TSV, TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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