GEO DataSets

(Submitter supplied) Retinal Müller glia (MG) can act as stem-like cells to generate new neurons in both zebrafish in mice. In zebrafish, retinal regeneration is innate and robust, resulting in the replacement of lost neurons and restoration of visual function. In mice, exogenous stimulation of MG is required to reveal a dormant and, to date, limited regenerative capacity. Zebrafish studies have been key in revealing factors that promote regenerative responses in the mammalian eye. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

138 Samples

Download data: CEL, XLSX

(Submitter supplied) Domoic acid (DA) is a naturally produced neurotoxin synthesized by the marine diatom genus Pseudo-nitzschia. DA accumulates in filter-feeders such as shellfish, and can produce severe neurotoxicity when contaminated seafood is ingested. DA poisoning is a significant public health concern, and though seafood regulations have effectively minimized the human risk of severe acute poisoning, the effects of exposure at asymptomatic levels are poorly understood. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

17 Samples

Download data: CEL

(Submitter supplied) It has been reported that polycyclic aromatic hydrocarbons (PAHs) act on calcified tissue and suppress osteoblastic activity in the scales of teleost fish. In the present study, the differentially-expressed genes in the zebrafish scales treated with benzo[c]phenanthrene (BcP), a kind of PAH, or its metabolite 3-hydroxybenzo[c]phenanthrene (3-OHBcP) were investigated using GeneChip® oligonucleotide microarrays.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

3 Samples

Download data: CEL, CHP

(Submitter supplied) In this report, we describe a successful protocol for isolating and expression-profiling live fluorescent- protein-labelled neurons from zebrafish embryos. As a proof-of-principle for this method, we FAC-sorted and RNA-profiled GFP-labelled spinal CiA interneurons and compared the expression profile of these cells to those of post-mitotic spinal neurons in general and to all trunk cells. We show that RNA of sufficient quality and quantity to uncover both expected and novel transcription profiles via Affymetrix microarray analysis can be extracted from 5,700 to 20,000 FAC-sorted cells. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

15 Samples

Download data: CEL

(Submitter supplied) Ethanol exposure during prenatal development causes fetal alcohol spectrum disorder (FASD), the most frequent preventable birth defect and neurodevelopmental disability syndrome. The molecular targets of ethanol toxicity during development are poorly understood. Developmental stages surrounding gastrulation are very sensitive to ethanol exposure. To understand the effects of ethanol on early transcripts during embryogenesis, we treated zebrafish embryos with ethanol during pre-gastrulation period and examined the transcripts by Affymetrix GeneChip microarray before gastrulation. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

12 Samples

Download data: CEL

(Submitter supplied) GFP+ leukemia arising in young adult zebrafish (6 month) were FACS-purified for RNA extraction and hybridization on Affymetrix microarrays. Two zebrafish ALL models included in this study, hMYC;GFP and hlk line, to investigate differences and similarities of leukemia arising in animals with different genetic background.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

13 Samples

Download data: CEL

(Submitter supplied) Zebrafish is an ideal model for the toxicity studies on medicines and environmental genetic toxicants.Different development defects were observed in zebrafish embryos exposed to -ray and heavy ion (carbon or iron) irradiation We used microarrays to detail the gene expression situation after radiation.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

5 Samples

Download data: CEL

(Submitter supplied) Cone photoreceptors are specialised sensory retinal neurons responsible for photopic vision, colour perception and visual acuity. Retinal degenerative diseases are a heterogeneous group of eye diseases in which the most severe vision loss typically arises from cone photoreceptor dysfunction or degeneration. Establishing a method to purify cone photoreceptors from retinal tissue can accelerate the identification of key molecular determinants that underlie cone photoreceptor development, survival and function. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

6 Samples

Download data: CEL

(Submitter supplied) Gene expression analysis to identify molecular mechanisms that regulate motility and CNS invasiveness of malignant hMYC-ER and hlkT-lymphoblasts

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

9 Samples

Download data: CEL, CHP

(Submitter supplied) mTOR inhibitor rapamycin is a well-known anticancer and immunosuppressant agent. Effects of rapamycin on zebrafish cells have not been previously studied using transcriptome analyses. Our microarray analysis on ZF4 cells showed that rapamycin treatment modulated a large set of genes with varying functions including protein synthesis, assembly of mitochondrial and proteosomal machinery, cell cycle, metabolism, and oxidative phosphorylation.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

5 Samples

Download data: CEL

(Submitter supplied) To examine the role of CREB overexpression in hematopoiesis, we created a model of leukemia in zebrafish by overexpressing the human CREB in the myeloid hematopoietic lineage. Whole transcriptome analysis of kidney-marrow revealed 171 genes differently expressed between CREB- and control-zebrafish (five per group). Interestingly, the integration of this signature with human deposited data revealed that this tumor resembled a human AML at transcriptome level.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

10 Samples

Download data: CEL

(Submitter supplied) The mammalian heart has poor regenerative capacity following injury. In contrast, certain lower vertebrates such as zebrafish retain a robust capacity for regeneration into adult life. Here we use an integrated approach to identify evolutionary conserved regenerative miRNA-dependant regulatory circuits in the heart. We identified novel miRNA-dependant networks involved in critical biological pathways, which are differentially utilized between the infarcted mouse heart and the regenerating zebrafish heart.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

8 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Danio rerio; Mus musculus

Type:

Expression profiling by array; Non-coding RNA profiling by high throughput sequencing

4 related Platforms

34 Samples

Download data: CEL

(Submitter supplied) Bdh2 morphants displayed mitochondrial dysfunction and degradation by autophagy, which could be restored by ectopic Bdh2 overexpression.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

5 Samples

Download data: CEL, CHP

(Submitter supplied) Bdh2 morphants displayed mitochondrial dysfunction and degradation by autophagy, as well as hypohemoglobinization. Suppression of Atg7 expression in Bdh2 morphants diminished mitochondrial clearance and partly corrected their hemoglobinization defect.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

10 Samples

Download data: CEL, CHP

(Submitter supplied) Zygotic genome activation (ZGA), which is according to the midblastula transition in zebrafish, is an important event during the maternal-zygotic transition in animals. Our preliminary study and other group’s works indicate that epigenetic regulations play an essential role in ZGA. Morpholino was employed to knockdown PRMT6. We used microarrays to analyze the global gene expression in prmt6 morphants.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

8 Samples

Download data: CEL

(Submitter supplied) The signaling molecule retinoic acid (RA) regulates rod and cone photoreceptor fate, differentiation, and survival. The purpose of this study was to identify eye-specific genes controlled by RA during photoreceptor differentiation in the zebrafish.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

6 Samples

Download data: CEL, CHP

(Submitter supplied) We report global RNA expression profiles from whole zebrafish hearts 24 hours after ventricle amputation. Zebrafish were exposed to atropine or water following surgery.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

2 Samples

Download data: CEL

(Submitter supplied) Adult zebrafish regenerate about half of cerebrospinal axons by six weeks after a complete spinal cord transection. We isolated the two populations of neurons that successfully regenerated their axons versus those that did not and isolated the total RNA. Cerebrospinal neurons from unlesioned animals were also collected to serve as controls. Whole transcriptome microarray was performed to determine axonal regeneration-associated genes. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

9 Samples

Download data: CEL

(Submitter supplied) UHRF1 (Ubiquitin-like, containing PHD and RING finger domains, 1) recruits DNMT1 to hemimethylated DNA during replication, is essential for maintaining DNA methylation patterns during cell division and is suggested to direct additional repressive epigenetic marks. Uhrf1 mutation in zebrafish results in multiple embryonic defects including failed hepatic outgrowth, but the epigenetic basis of these phenotypes is not known. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

4 Samples

Download data: CEL