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| Status |
Public on Sep 28, 2018 |
| Title |
Reprogramming the CNS of the Proto-Vertebrate Ciona intestinalis Using Single-Cell Transcriptomics |
| Organism |
Ciona intestinalis |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We applied single cell RNA seq with 10x genomics platform to study co-expression of both Ptf1a and Meis leading to the wholesale transformation of the entire CNS into Coronet cells. Our study identify a cocktail of regulatory determinants for the efficient specification of Coronet cells.
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| Overall design |
We injected Ptf1a>β2tubulin construct into Ciona oocytes, fertilized and let them developed into middle tailbud stage along with control. We also injected Ptf1a and Meis>β2tubulin construct into Ciona oocytes, fertilized and let them developed into late tailbud stage along with control. Embryos were dissociated into single cells and loaded into 10x platform for single cell RNA-seq. Reads are aligned to Ciona genome with Cell Ranger pipeline.
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| |
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| Contributor(s) |
Cao C, Chen K |
| Citation(s) |
30228204 |
| |
| Submission date |
Sep 17, 2018 |
| Last update date |
Oct 12, 2018 |
| Contact name |
Chen Cao |
| E-mail(s) |
chencao@princeton.edu
|
| Organization name |
Princeton University
|
| Department |
Lewis-Sigler Institute for Integrative Genomics
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| Lab |
Levine Lab
|
| Street address |
Icahn lab
|
| City |
Princeton |
| State/province |
New Jersey |
| ZIP/Postal code |
08550 |
| Country |
USA |
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| Platforms (1) |
| GPL23102 |
Illumina HiSeq 2500 (Ciona intestinalis) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA491426 |
| SRA |
SRP161890 |
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