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| Status |
Public on Apr 17, 2018 |
| Title |
Cell type transcriptome atlas for the planarian Schmidtea mediterranea |
| Organisms |
Homo sapiens; Mus musculus; Schmidtea mediterranea |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The transcriptome of a cell dictates its unique cell-type biology. We used single-cell RNA sequencing to determine the transcriptomes for essentially every cell type of a complete animal: the regenerative planarian Schmidtea mediterranea. Planarians contain a diverse array of cell types, possess lineage progenitors for differentiated cells (including pluripotent stem cells), and constitutively express positional information, making them ideal for this undertaking. We generated data for 66,783 cells, defining transcriptomes for known and many previously unknown planarian cell types and for putative transition states between stem and differentiated cells. We also uncovered regionally expressed genes in muscle, which harbors positional information. Identifying the transcriptomes for potentially all cell types for many organisms should be readily attainable and is a powerful new approach to metazoan biology.
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| Overall design |
Single cell transcriptomes for the planarian Schmidtea mediterranea were generated using Drop-seq.
Please note that each processed data file was generated from multiple samples, as indicated in the corresposponding sample description field.
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| Contributor(s) |
Fincher CT, Wurtzel O, de Hoog T, Kravarik KM, Reddien PW |
| Citation(s) |
29674431, 30962434 |
| Submission date |
Mar 13, 2018 |
| Last update date |
Apr 17, 2019 |
| Contact name |
Christopher Fincher |
| E-mail(s) |
cfincher@wi.mit.edu
|
| Organization name |
Whitehead Institute
|
| Lab |
Reddien
|
| Street address |
455 Main St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platforms (2) |
| GPL19969 |
Illumina MiSeq (Homo sapiens; Mus musculus) |
| GPL21689 |
Illumina NextSeq 500 (Schmidtea mediterranea) |
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| Samples (32)
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| Relations |
| BioProject |
PRJNA438083 |
| SRA |
SRP135258 |
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