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| Status |
Public on Apr 25, 2016 |
| Title |
Tissue- and stage-specific cellular context regulates Wnt target gene expression subsequent to β-catenin recruitment |
| Organism |
Xenopus tropicalis |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
The aim of our study is to identify direct target genes of Wnt/β-catenin signaling operating in gastrula-stage X. tropicalis embryos. We characterized the genomic loci bound by the Wnt signaling downstream component β-catenin in intact X. tropicalis gastrulae using ChIP-seq. We also determined the normal mRNA expression profile in control (uninjected and control-MO-injected) embryos and altered mRNA expression profiles in two experimental samples: embryos where endogenous wnt8a function was knocked down with wnt8a MO, and where we experimentally re-instated Wnt8a expression with a DNA construct (pCSKA-wnt8a) in the same wnt8a knock down.
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| Overall design |
For ChIP-seq, one ChIP DNA and one input control DNA samples pooled from three independent ChIP experiments using early gastrula embryos were sequenced. For RNA-seq, Twelve total RNA samples (triplicates of each experimental samples: uninjected, CoMO-injected, wnt8aMO-injected, wnt8aMO and pCSKA-wnt8a-coinjected) from early gastrula embryos were sequenced.
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| Contributor(s) |
Nakamura Y, Alves E, Hoppler S |
| Citation(s) |
27068107 |
| |
| Submission date |
Sep 02, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Stefan Hoppler |
| Organization name |
University of Aberdeen
|
| Department |
Institute of Medical Sciences
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| Lab |
Stefan Hoppler
|
| Street address |
Foresterhill
|
| City |
Aberdeen |
| ZIP/Postal code |
AB25 2ZD |
| Country |
United Kingdom |
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| Platforms (2) |
| GPL15472 |
Illumina HiSeq 2000 (Xenopus (Silurana) tropicalis) |
| GPL18470 |
Illumina HiSeq 2500 (Xenopus (Silurana) tropicalis) |
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| Samples (14)
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| Relations |
| BioProject |
PRJNA294599 |
| SRA |
SRP063109 |
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