|
| Status |
Public on Aug 18, 2021 |
| Title |
Single cell gene expression analysis of zebrafish body elongation |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
scRNA-seq analysis was conducted on elongating tail of developping zebrafish. We investigated the cell subpopulaiton during this developping process under purturbation of Wnt, Fgf and BMP signaling pathway.
|
| |
|
| Overall design |
We performed single cell RNA sequencing (scRNAseq) on dissected tails from 10-12 somite stage zebrafish embryos. We used wild-type embryos and embryos subject to treatments known to alter tailbud cell migration, specifically inhibition of FGF, BMP, or Wnt signaling. For each treatment, we prepared four biological replicates each consisting of 10 to 12 tailbuds and resulting in 30,000-35,000 single cell profiles.
|
| |
|
| Contributor(s) |
Genuth M, Kojima Y, Holley SA |
| Citation(s) |
37267354 |
| |
| Submission date |
May 05, 2021 |
| Last update date |
Aug 11, 2023 |
| Contact name |
Scott A. Holley |
| E-mail(s) |
kojima.yasuhiro@med.nagoya-u.ac.jp
|
| Organization name |
Yale University
|
| Department |
Department of Molecular, Cellular and Developmental Biology
|
| Lab |
Yale Science Building, Room 106
|
| Street address |
219 Prospect St
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06511 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL21741 |
Illumina HiSeq 4000 (Danio rerio) |
|
| Samples (16)
|
| GSM5282491 |
scRNA-seq of Wild type embryo replicate 1 |
| GSM5282492 |
scRNA-seq of Wild type embryo replicate 2 |
| GSM5282493 |
scRNA-seq of DMH1-treatment embryo replicate 1 |
| GSM5282494 |
scRNA-seq of DMH1-treatment embryo replicate 2 |
| GSM5282495 |
scRNA-seq of DMH1-treatment embryo replicate 3 |
| GSM5282496 |
scRNA-seq of DMH1-treatment embryo replicate 4 |
| GSM5282497 |
scRNA-seq of Wild type embryo replicate 3 |
| GSM5282498 |
scRNA-seq of Wild type embryo replicate 4 |
| GSM5282499 |
scRNA-seq of SU5402-treatment embryo replicate 1 |
| GSM5282500 |
scRNA-seq of SU5402-treatment embryo replicate 2 |
| GSM5282501 |
scRNA-seq of SU5402-treatment embryo replicate 3 |
| GSM5282502 |
scRNA-seq of SU5402-treatment embryo replicate 4 |
| GSM5282503 |
scRNA-seq of notum-1-treatment embryo replicate 1 |
| GSM5282504 |
scRNA-seq of notum-1-treatment embryo replicate 2 |
| GSM5282505 |
scRNA-seq of notum-1-treatment embryo replicate 3 |
| GSM5282506 |
scRNA-seq of notum-1-treatment embryo replicate 4 |
|
| Relations |
| BioProject |
PRJNA727493 |
| SRA |
SRP318543 |
Less...
More...