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Links from GEO DataSets

Items: 20

1.
Full record GDS2556

Embryonic retinal pigment epithelium

Analysis of microdissected embryonic retinas with or without the retinal pigment epithelium (RPE). The RPE is a thin layer of cells that underlies the neural retina and supports the function and development of photoreceptors. Results provide insight into the development of the RPE.
Organism:
Danio rerio
Type:
Expression profiling by array, count, 2 tissue sets
Platform:
GPL1319
Series:
GSE5048
6 Samples
Download data: CEL, DAT
2.

Gene Expression Profiling of Zebrafish Embryonic Retinal Pigment Epithelium in vivo.

(Submitter supplied) Eye development and photoreceptor maintenance requires the retinal pigment epithelium (RPE), a thin layer of cells that underlies the neural retina. Despite its importance, RPE development has not been studied by a genomic approach. A microarray expression profiling methodology was established in this study for studying RPE development. The intact retina with RPE attached was dissected from developing embryos, and differentially expressed genes in RPE were inferred by comparing the dissected tissues with retinas without RPE using microarray and statistical analyses. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Dataset:
GDS2556
Platform:
GPL1319
6 Samples
Download data: CEL, DAT
Series
Accession:
GSE5048
ID:
200005048
3.

Expression profiling of the retinal pigment epithelium in zebrafish smarca4 mutant

(Submitter supplied) Purpose: The purpose of this study was to develop a framework for analyzing RPE expression profiles from zebrafish eye mutants. Methods: The fish model we used was smarca4 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4), a retinal dystrophic mutant that the retinal phenotype and expression profiles were previously characterized. Histological and Affymetrix GeneChip analyses were conducted to define the RPE defects and underlying differential expression respectively. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL1319
18 Samples
Download data: CEL
Series
Accession:
GSE50241
ID:
200050241
4.

Develomental Time Course of the Retinal Pigment Epithelial Transcriptome

(Submitter supplied) Purpose: The morphology of the RPE shows minimal change as the neural retina and choriocapillaris differentiate. Nonetheless, initial studies of barrier-related proteins suggest extensive remodeling of the RPE in response to this changing environment. A genomic approach was used to investigate the extent of this remodeling. Methods: RPE was isolated from E7, E10, E14 and E18 chick embryos and total RNA extracted for probing the entire genome on Affymetrix microarray chips. more...
Organism:
Gallus gallus
Type:
Expression profiling by array
Dataset:
GDS2964
Platform:
GPL3213
14 Samples
Download data: CEL, EXP
Series
Accession:
GSE7176
ID:
200007176
5.
Full record GDS2964

Retinal pigment epithelium development

Analysis of retinal pigment epithelia (RPE) of E7 to E18 embryos. The RPE regulates transport between the neural retina and fenestrated capillaries of the choroid, a vascular layer between the retina and sclera. Results provide insight into the extent of remodeling of the RPE during development.
Organism:
Gallus gallus
Type:
Expression profiling by array, count, 4 development stage sets
Platform:
GPL3213
Series:
GSE7176
14 Samples
Download data: CEL, EXP
DataSet
Accession:
GDS2964
ID:
2964
6.

The effect of cardiac troponin T2 knockdown on gene expression in zebrafish embryos

(Submitter supplied) We examined the transcriptional effect of preventing cardiac contraction in zebrafish embryos which can be deprived of circulation without experiencing hypoxia since the fish obtain sufficient oxygen via diffusion. Morpholino antisense knockdown of cardiac troponin T2 (tnnt2) prevented cardiac contraction without affecting vascular development. We concluded that absence of hemodynamic force induces endothelial CXCR4a up-regulation and promotes recovery of blood flow. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL1319
18 Samples
Download data: CEL, TXT, XLS
Series
Accession:
GSE16740
ID:
200016740
7.

Factorial Microarray Analysis of Zebrafish Retinal Development

(Submitter supplied) Retinal cells are specified in a zebrafish recessive mutant called young (yng) but they fail to terminally differentiate; i.e. extend neurites and make synaptic contacts. A point mutation in a brahma-related gene 1 (brg1) is responsible for this phenotype. In this microarray study, a three-factor factorial design was utilized to investigate the effects of 1) mutation, 2) change in time (36 vs. 52hpf), and 3) change in tissue (retina vs. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL1319
24 Samples
Download data: CEL, EXP
Series
Accession:
GSE8874
ID:
200008874
8.

The knockdown of the maternal estrogen receptor-β2 mRNA (ers2a) affects embryo transcript contents and larval development in zebrafish

(Submitter supplied) In zebrafish, vitellogenic oocytes can incorporate significant amounts of 17β-estradiol released from nearby granulosa cells according to a first-order kinetics, since the steroid low polarity ensures high permeability and affinity for yolk lipids. Estrogen bioactivity is likely, because the maternal mRNA for the estrogen receptor-β2 (ers2a) is highly expressed in ovulated oocytes. This transcript is available for translation in the embryo until its sharp decline from 4 to 8 hours post-fertilization (hpf), being replaced by low levels of zygotic ers2a mRNA from 24 hpf to hatching at 48 hpf, as determined by qRT-PCR. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL6457
2 Samples
Download data: TXT
Series
Accession:
GSE24934
ID:
200024934
9.

MicroRNAs of the RPE are essential for RPE differentiation and photoreceptor maturation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus; synthetic construct
Type:
Expression profiling by array; Non-coding RNA profiling by array
Platforms:
GPL10740 GPL14613
14 Samples
Download data: CEL
Series
Accession:
GSE69883
ID:
200069883
10.

MicroRNAs of the RPE are essential for RPE differentiation and photoreceptor maturation (microRNA)

(Submitter supplied) Dysfunction of the retinal pigmented epithelium (RPE) results in degeneration of photoreceptors and vision loss and is correlated with common blinding disorders in humans. Although many protein-coding genes are known to be expressed in RPEs and important for their development and maintenance, virtually nothing is known about the in vivo roles of non-protein coding transcripts in RPEs. The expression patterns of microRNAs (miRNAs) have been analyzed in a variety of ocular tissues, and few were implicated to play role in RPE based on studies in cell lines. more...
Organism:
synthetic construct; Mus musculus
Type:
Non-coding RNA profiling by array
Platform:
GPL14613
7 Samples
Download data: CEL
Series
Accession:
GSE69882
ID:
200069882
11.

MicroRNAs of the RPE are essential for RPE differentiation and photoreceptor maturation (mRNA)

(Submitter supplied) Dysfunction of the retinal pigmented epithelium (RPE) results in degeneration of photoreceptors and vision loss and is correlated with common blinding disorders in humans. Although many protein-coding genes are known to be expressed in RPEs and important for their development and maintenance, virtually nothing is known about the in vivo roles of non-protein coding transcripts in RPEs. The expression patterns of microRNAs (miRNAs) have been analyzed in a variety of ocular tissues, and few were implicated to play role in RPE based on studies in cell lines. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL10740
7 Samples
Download data: CEL
Series
Accession:
GSE69881
ID:
200069881
12.

Gene expression in unfertilized eggs and the MBT stage of zebrafish embryos

(Submitter supplied) Very little is known on the nature of epigenetic states in developing zebrafish despite its growing importance as a model organism in developmental biology. We report histone modifications on promoters of pluripotency genes in zebrafish embryos at the mid-late blastula transition (MBT+) stage. We identify three classes of expressed genes based on these profiles: (1) those with a promoter occupied by marks of active genes without any repressive marks; (2) those co-occupied by both activating and repressive modifications; of these genes, klf4 was notably found to be mosaically expressed in the embryo, possibly accounting for this epigenetic pattern; (3) those occupied by repressive marks with, surprisingly, little not acetylated H3K9 or H4. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL9998
7 Samples
Download data: TXT
Series
Accession:
GSE20137
ID:
200020137
13.

Eye-Specific Gene Expression following Embryonic Ethanol Exposure in Zebrafish: Roles for Heat Shock Factor 1

(Submitter supplied) Ethanol is a well-known teratogen. While this teratogenic potential is well-characterized clinically, the mechanisms through which ethanol exposure results in developmental defects remain unclear. Here we use the zebrafish model to elucidate eye-specific mechanisms that may underlie ethanol-mediated microphthalmia (reduced eye size), using time-series microarray analysis of gene expression of eye tissues of embryos exposed to 1.5% ethanol vs. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Dataset:
GDS5357
Platform:
GPL1319
9 Samples
Download data: CEL, CHP
Series
Accession:
GSE51427
ID:
200051427
14.
Full record GDS5357

Ethanol effect on embryonic eyes: time course

Analysis of eyes from 24-48 hour post-fertilization embryos exposed to 1.5% ethanol. Ethanol exposure during retinal neurogenesis associated with microphthalmic defects. Results provide insight into molecular mechanisms underlying ethanol exposure-mediated developmental retinal defects.
Organism:
Danio rerio
Type:
Expression profiling by array, count, 2 agent, 5 time sets
Platform:
GPL1319
Series:
GSE51427
9 Samples
Download data: CEL, CHP
15.

Expression profiling of zebrafish sox9 mutants reveals that Sox9 is required for retinal differentiation

(Submitter supplied) The transcription factor gene Sox9 plays various roles in development, including differentiation of the skeleton, testes, glia, and heart. Other functions of Sox9 remain enigmatic. Because Sox9 protein regulates expression of target genes, the identification of Sox9 targets should facilitate an understanding of the mechanisms of Sox9 action. To help identify Sox9 targets, we used microarray expression profiling to compare wild-type embryos to mutant embryos lacking activity for sox9a and sox9b, the zebrafish co-orthologs of Sox9. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platform:
GPL7556
6 Samples
Download data: GPR
Series
Accession:
GSE13482
ID:
200013482
16.

Dissecting the transcriptome landscape of human neural retina and retinal pigment epithelium by Single-cell RNA sequencing analysis

(Submitter supplied) The developmental pathway of the neural retina (NR) and retinal pigment epithelium (RPE) has been revealed by extensive research in mice. However, the molecular mechanisms underlying the development of the human NR and RPE, as well as the interactions between these two tissues, have not been well defined. Here, we analyzed 2,421 individual cells from human fetal NR and RPE using single-cell RNA sequencing (RNA-seq) technique and revealed the tightly regulated spatiotemporal gene expression network of human retinal cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
64 Samples
Download data: CSV
Series
Accession:
GSE107618
ID:
200107618
17.

Gene expression profile of the developing human retinal pigment epithelium

(Submitter supplied) The microarray technique was used to investigate gene expression level changes in human retinal pigment epithelium (RPE) microdissected from fetal eyes (13 and 16 weeks of gestation) and adult eyes (40-60 years old). The gene expression analysis of human fetal RPE during development were performed and compared to human native RPE. Of the 45,033 probe sets on the microarray, 30,736 were detected. 3498 differentially expressed genes could be clustered into 8 patterns of expression that were statistically significant. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platforms:
GPL10191 GPL16025
6 Samples
Download data: CALLS, PAIR, TXT
Series
Accession:
GSE40980
ID:
200040980
18.

Transcriptome profiling of zebrafish optic fissure fusion

(Submitter supplied) Incomplete fusion of the optic fissure leads to ocular coloboma, a congenital eye defect that affects up to 7.5 per 10,000 births and accounts for up to 10 percent of childhood blindness. The molecular and cellular mechanisms that facilitate optic fissure fusion remain elusive. We have profiled global gene expression during optic fissure morphogenesis by transcriptome analysis of tissue dissected from the margins of the zebrafish optic fissure and the opposing dorsal retina before (32 hours post fertilisation, hpf), during (48 hpf) and after (56 hpf) optic fissure fusion. more...
Organism:
Danio rerio
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21741
30 Samples
Download data: TSV
Series
Accession:
GSE159822
ID:
200159822
19.

Expression profiling of the retina of pde6c, a zebrafish model of retinal degeneration

(Submitter supplied) Retinal degeneration often affects the whole retina even though the disease-causing gene is specifically expressed in the light-sensitive photoreceptors. These retinal defects can potentially be determined by gene-expression profiling of the whole retina. In this study, we measured the gene-expression profile of retinas microdissected from a zebrafish pde6cw59 (pde6c) mutant. Its retinas display not only photoreceptor degeneration but also issues in other cell types starting from 4 days postfertilization (dpf). more...
Organism:
Danio rerio
Type:
Expression profiling by high throughput sequencing
Platform:
GPL14875
6 Samples
Download data: TXT
Series
Accession:
GSE101544
ID:
200101544
20.

Image defocus and altered retinal gene expression in chicks

(Submitter supplied) Because refractive development is governed largely by the retina, we analyzed the retinal transcriptome in chicks wearing a spectacle lens, a well-established means to induce refractive errors, to identify gene expression alterations and to develop novel mechanistic hypotheses about refractive development.
Organism:
Gallus gallus
Type:
Expression profiling by array
Dataset:
GDS3924
Platform:
GPL3213
48 Samples
Download data: CEL, CHP
Series
Accession:
GSE24641
ID:
200024641
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