Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Danio rerio

ABSTRACT: Genome-wide mapping of Hif-1α binding sites in zebrafish [ChIP-seq]

PROVIDER: PRJNA289449 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR2096266.fastq.gz	Fastqsanger.gz
	SRR2096267.fastq.gz	Fastqsanger.gz
	SRR2096268.fastq.gz	Fastqsanger.gz
	SRR2096269.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Danio rerio

Project description:Genome-wide mapping of Hif-1α binding sites in zebrafish [microarray]

| PRJNA289856 | ENA

Genome-wide mapping of Hif-1α binding sites in zebrafish

Project description:Genome-wide mapping of Hif-1α binding sites in zebrafish

| PRJNA289762 | ENA

Genome-wide mapping of Hif-1α binding sites in zebrafish [ChIP-seq]

Project description:Analysis of the binding sites of Hif-1α in both wild-type and von Hippel Lindau mutant zebrafish lines at 4dpf by ChIP linked next generation sequencing. The von Hippel Lindau mutant displays a systemic hypoxic response under normoxic conditions. Results show the extent of Hif-1α binding to the genome, and provide a basis for analysis of the transcriptional response to genetically induced hypoxia in zebrafish.

2016-03-22 | GSE70727 | GEO

Danio rerio

Project description:Genome-wide analysis of Smad2 and FoxH1 binding sites in zebrafish blastula

| PRJNA280533 | ENA

Danio rerio

Project description:Genome-wide maps of binding sites of Nanog-like and Mxtx2 in blastula stage zebrafish embryos

| PRJNA156233 | ENA

Danio rerio

Project description:Mapping of H3K4 and H3K27 trimethylation in zebrafish cells (ChIP-chip)

| PRJNA133135 | ENA

Role of the Exon Junction Complex in Danio rerio

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

Global Proteomic Analysis of Lysine Succinylation in Zebrafish (Danio rerio)

Project description:Lysine succinylation (Ksu) is a novel identified post-translational modification that conserved from prokaryote to eukaryotes. As a kind of acylation, Ksu was reported to have different functions with others acylation at lysine residue. However, recently studies on the Ksu mainly focus on the plants and bacterial, there are still very rare studies in the vertebrate. Therefore, the biological role of succinylation remains largely unknown in mammal. In this study, we performed global Ksu mapping in Danio rerio (zebrafish) using mass spectrometry-based proteomics with enrichment of Ksu peptides by immunoprecipitation technology. As a result, we totally identified 552 Ksu sites in 164 proteins. Compared with our previous studies on lysine acetylation and crotonylation, Ksu plays a major role in a diverse metabolic process, such as carbon metabolism and tricarboxylic acid circle. In addition, we defined 5 new succinylation motifs: (su)KA, (suc)KxxxxA, (su)KxxxxL, (su)KxA, (su)KxV. In conclusion, our result provides proteome-wide database for study of Ksu in zebrafish and our bioinformatics result facilitated the understanding of the Ksu in the role of central metabolism.

2019-09-09 | PXD013173 | Pride

Danio rerio

Project description:Genome-wide profiling of Tbx6myc binding during zebrafish somitogenesis

| PRJNA246287 | ENA

Danio rerio

Project description:Genome-wide profiling of Smad2 and Eomesa binding in zebrafish blastulas

| PRJNA225690 | ENA