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| Status |
Public on Aug 01, 2014 |
| Title |
E2a is necessary for Smad2/3 dependent transcription and the direct repression of lefty |
| Organism |
Xenopus tropicalis |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We characterized the binding of Smad2/3 using ChIP-SEQ in both control gastrula-stage X. tropicalis embryos and embryos depleted of the transcription factor E2a (E2a-MO). We also characterized gene expression in control and E2a-depleted embryos by RNA-Seq. For ChIP-Seq, three biological replicates of E2a-MO were performed, and two biological replicates of Control embryos were performed. For RNA-Seq, two biological replicates of E2a-MO were performed, and two biological replicates of Control embryos were performed, and the mean expression levels of each gene were compared.
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| Overall design |
For ChIP-Seq, three biological replicates were performed for E2a-depleted X. tropicalis embryos, and two biological replicates were performed for control gastrula-stage embryos. For RNA-Seq, two biological replicates were performed for both E2a-depleted embryos and control embryos, and the mean expression levels were compared for each gene.
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| Contributor(s) |
Wills AE, Baker JC |
| Citation(s) |
25669884 |
| |
| Submission date |
Mar 25, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Andrea E. Wills |
| Organization name |
Stanford School of Medicine
|
| Department |
Genetics
|
| Lab |
Julie Baker
|
| Street address |
300 Pasteur Drive
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (2) |
| GPL9320 |
Illumina Genome Analyzer II (Xenopus (Silurana) tropicalis) |
| GPL15472 |
Illumina HiSeq 2000 (Xenopus (Silurana) tropicalis) |
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| Samples (11)
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| Relations |
| BioProject |
PRJNA242626 |
| SRA |
SRP040548 |
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