Danio rerio
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA754645 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The Zebrafish Gene Collection (ZGC) aims to identify and sequence full-length Danio rerio clones.
| PRJNA11778 | ENA
Project description:The exon junction complex (EJC) is composed of three core proteins Rbm8a, Magoh and Eif4a3 and is thought to play a role in several post-transcriptional processes. In this study we focus on understanding the role of EJC in zebrafish development. We identified transcriptome-wide binding sites of EJC in zebrafish via RNA:protein immunoprecipitation followed by deep sequencing (RIP-Seq). We find that, as in human cells, zebrafish EJC is deposited about 24 nts upstream of exon-exon junctions. We also identify transcripts regulated by Rbm8a and Magoh in zebrafish embryos using whole embryo RNA-seq from rbm8a mutant, magoh mutant and wild-type sibling embryos. This study shows that nonsense mediated mRNA decay is dysregulated in zebrafish EJC mutants.
2019-07-30 | GSE135019 | GEO
Project description:With the emergence of zebrafish as an important model organism, a concerted effort has been made to study its transcriptome. This effort is limited by gaps in zebrafish annotation, which is especially pronounced concerning transcripts dynamically expressed during zygotic genome activation (ZGA). To date, short read sequencing has been the principal technology for zebrafish transcriptome annotation. In part because these sequence reads are too short for assembly methods to resolve the full complexity of the transcriptome, the current annotation is rudimentary. By providing direct observation of full-length transcripts, recently refined long-read sequencing platforms can dramatically improve annotation coverage and accuracy. Here, we leveraged the SMRT platform to study the early ZGA-stage zebrafish transcriptome. Our analysis revealed additional novelty and complexity in the zebrafish transcriptome, identifying 2748 high confidence novel transcripts that originated from previously unannotated loci and 1835 new isoforms in previously annotated genes.
2018-05-24 | GSE101843 | GEO
Project description:Transcriptome profiling of zebrafish brain under hypoxia
| PRJNA336341 | ENA
Project description:Transcriptome profiling times series of zebrafish heart regeneration
| PRJNA280601 | ENA
Project description:Classifying chemical endocrine activity using transcriptome profiling in zebrafish
| PRJNA353248 | ENA
Project description:Codon usage and 3′ UTR length determine maternal mRNA stability in zebrafish
| PRJNA291613 | ENA
Project description:In this study we performed thermal proteome profiling experiments on zebrafish lysate after treatment with the drug pervanadate.
2020-10-29 | PXD017418 | Pride