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| Status |
Public on Jul 10, 2019 |
| Title |
scSLAM-seq reveals core features of transcription dynamics in single cells |
| Organisms |
Homo sapiens; Mus musculus; Murid betaherpesvirus 1 |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Single cell RNA sequencing so far only depicts cellular transcriptomes at a single time point with low temporal resolution for kinetic changes. Here, we present a single-cell approach based on metabolic RNA labelling for combined sequencing of total and newly transcribed RNA as well as computational analysis of the RNA present prior to labelling. We apply it to cytomegalovirus infection of fibroblasts and reveal its potential for delineating alterations in transcriptional activity and decay in single cells under perturbed experimental conditions.
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| Overall design |
We performed scSLAM-seq on 107 single cells across two biological replicates and analyzed global transcriptional changes of matched bulk cells using SLAM-seq.
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| Contributor(s) |
Erhard F, Baptista MA, Krammer T, Hennig T, Lange M, Arampatzi P, Jürges CS, Theis FJ, Saliba AE, Dölken L |
| Citation(s) |
31292545 |
| |
| Submission date |
Jun 11, 2018 |
| Last update date |
Jul 15, 2019 |
| Contact name |
Antoine-Emmanuel Saliba |
| E-mail(s) |
emmanuel.saliba@helmholtz-hzi.de
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| Phone |
+49-931-31-81341
|
| Organization name |
Helmholtz Institute for RNA-based Infection Research
|
| Street address |
Josef-Schneider-Straße 2 / D15
|
| City |
Würzburg |
| ZIP/Postal code |
97080 |
| Country |
Germany |
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| Platforms (3) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL25526 |
Illumina NovaSeq 6000 (Homo sapiens; Mus musculus) |
| GPL25867 |
Illumina NextSeq 500 (Murid betaherpesvirus 1) |
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| Samples (124)
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| Relations |
| BioProject |
PRJNA475573 |
| SRA |
SRP150248 |
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