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| Status |
Public on Sep 16, 2022 |
| Title |
Probing cell identity hierarchies by fate titration and collision during direct reprogramming [scRNA-seq & scATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Collide-seq: A systematic comparison of how different reprogramming transcription factors achieve conversion as well as an in-depth analysis of how cells resolve the conflict when more than one fate is instructed.
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| Overall design |
Mouse embryonic fibroblasts were nucleofected with doxycycline inducible constructs for Ascl1, MyoD1 and a DNA binding mutant of Ascl1 (mutAscl1). Cells were expanded for about 10 days and positive cells sorted using FACS. All conditions were pooled and plated together. Transcription factor expression was induced for 72h via the administration of doxycycline. After 72h, cells were collected for scMultiome, i.e., scRNA-seq and scATAC-seq from the same cells
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| Web link |
https://www.embopress.org/doi/full/10.15252/msb.202211129
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| Contributor(s) |
Hersbach BA, Fischer DS, Masserdotti G, Deeksha D, Mojžišová K, Waltzhöni T, Rodriques-Terrones D, Heinig M, Theis FJ, Götz M, Stricker SH |
| Citation(s) |
36106915 |
| |
| Submission date |
Aug 23, 2022 |
| Last update date |
Sep 18, 2022 |
| Contact name |
Bob Hersbach |
| E-mail(s) |
bob.hersbach@helmholtz-muenchen.de
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| Organization name |
Helmholtz Zentrum Munich
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| Department |
Institute of Stem Cell Research
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| Street address |
Großhaderner Str. 9
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| City |
Planegg-Martinsried |
| ZIP/Postal code |
82152 |
| Country |
Germany |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE211864 |
Probing cell identity hierarchies by fate titration and collision during direct reprogramming |
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| Relations |
| BioProject |
PRJNA872404 |
