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Danio rerio

ABSTRACT: Transcriptomics analysis of gene expressions and DNA 5mC enrichment levels in control and dnmt1 morphants zebrafish embryos

PROVIDER: PRJNA362849 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5195164_1.fastq.gz	Fastqsanger.gz
	SRR5195164_2.fastq.gz	Fastqsanger.gz
	SRR5195165_1.fastq.gz	Fastqsanger.gz
	SRR5195165_2.fastq.gz	Fastqsanger.gz
	SRR5195166_1.fastq.gz	Fastqsanger.gz

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Danio rerio

Project description:Transcriptomics analysis of gene expressions, m6A enrichment levels and ythdf2 binding targets in control and mettl3 or ythdf2 morphants zebrafish embryos

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Project description:Zebrafish embryos: hdac1 Morphants vs Standard control morphants

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Danio rerio

Project description:Zebrafish 50% epiboly embryos: controls vs. Aplnra/b morphants

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Project description:Zebrafish embryos: hdac1 Morphants vs Standard control morphants at 12, 18 and 27 hpf

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WGBS and RNA-seq of Danio rerio in HSPC generation

Project description:In this study, we interrogated the role of DNA methylation in HSPC generation by taking advantage of dnmt1 knockout/knockdown embryos in zebrafish. First, we generated a comprehensive DNA methylation landscape of EHT, which revealed gradually hypermethylated regions associated with vasculogenesis. Taking advantage of dnmt1-deficient embryos, we showed that the decreased DNA methylation blocked HSPC emergence. Mechanistically, we demonstrated that the decreased DNA methylation increased the expression of arterial genes and Notch signaling, thus contributing to defects in the EHT in dnmt1-deficient embryos. Herein, we identified that DNA methylation, as epigenetic regulator, participates in the negative modulation of Notch signaling through inhibiting transcription during HSPC generation in zebrafish.

2022-05-10 | GSE189072 | GEO

Danio rerio

Project description:Chlorpyrifos exposure zebrafish embryos

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Project description:Aroclor exposure zebrafish embryos

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Project description:Expression data from zebrafish embryos

| PRJNA296948 | ENA

Danio rerio

Project description:Expression data from zebrafish embryos

| PRJNA356264 | ENA

Effects of PKC412 on gene expression and link to physiological effects in zebrafish Danio rerio eleuthero-embryos

Project description:To identify molecular effects of the antineoplastic agent PKC412 (Midostaurin), we applied gene expression profiling in zebrafish using whole genome microarrays. Zebrafish eleuthero-embryos were exposed for 6 dpf to nominal levels of 2 μg/L and 40 μg/L PKC412. Among the 259 and 511 altered transcripts at both concentrations, respectively, the expressions of genes involved in the circadian rhythm were of interest. Alteration of swimming behaviour was not noted. Pathways of interest affected by PKC412 were angiogenesis, apoptosis, DNA damage response and response to oxidative stress. Angiogenesis was not altered by PKC412 treatment at both concentrations. Apoptosis occurred in olfactory placodes of embryos exposed to 40 μg/L, and DNA damage was induced at both PKC412 concentrations. However, there were no significant effects on reactive oxygen species formation. This study leads to the conclusion that PKC412-induced alterations of gene transcripts are partly paralleled by physiological effects at high, but not at low PKC412 concentrations expected to be of environmental relevance. Gene expression in zebrafish eleuthero-embryos was measured after exposure for 6dpf to 2 ug/L and 40 ug/L PKC412 or to the respective controls. A total of 12 arrays (Agilent 4 × 44 K Zebrafish microarray) were used, including four for the water control group, four for the solvent control group, four for the 2 μg/L and four for the 40 μg/L PKC412 dose group.

2011-07-22 | E-GEOD-23156 | biostudies-arrayexpress

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