GEO DataSets

(Submitter supplied) Aim: To identify the genes and non-coding RNAs (ncRNAs) involved in the neuroprotective actions of a dietary anti-oxidant (saffron) and of photobiomodulation. Methods: We used a previously published assay of photoreceptor damage, in which albino Sprague Dawley rats raised in dim cyclic illumination (12h 5 lux, 12h darkness) are challenged by 24h exposure to bright (1,000 lux) light. Experimental groups were protected against light damage by pretreatment with dietary saffron (1mg/kg/day for 21d) or photobiomodulation (10 J/cm2 at the eye, daily for 5d). more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL6247

18 Samples

Download data: CEL, CHP

(Submitter supplied) Purpose: In the C57BL/6J mouse retina, hyperoxia-induced degeneration of photoreceptors shows strong regional variation, beginning at a locus ~0.5mm inferior to the optic disc. To identify gene expression differences that might underlie this variability in vulnerability, we have used microarray techniques to describe regional (superior-inferior) variations in gene expression in the retina.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

8 Samples

Download data: CEL

(Submitter supplied) Purpose: To investigate the effect of transcorneal electrical stimulation (TES) on the retina of wildtype Brown Norway (BN) rats by gene expression profiling. Methods: TES was applied to BN adult wildtype rat retina in vivo for 1h (1ms biphasic pulses at 20Hz; current: 200 µA). RNA was isolated, processed and used for microarray-based expression profiling 4hrs after initial TES. An expression profile was generated for genes differentially expressed at 4hrs after TES vs. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL10741

8 Samples

Download data: CEL, CHP

(Submitter supplied) Purpose. XOPS-mCFP transgenic zebrafish experience a continual cycle of rod photoreceptor development and degeneration throughout life, making them a useful model to investigate the molecular determinants of rod photoreceptor regeneration. The purpose of this study was to compare the gene expression profiles of wild type and XOPS-mCFP retinas in order to identify genes that may contribute to the regeneration of the rods. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL6563

8 Samples

Download data: TXT

(Submitter supplied) Dysfunctional humoral and cellular innate immunity are key components in the development and progression of age-related macular degeneration (AMD). Specifically, chronically activated microglia and their disturbed regulatory system contribute to retinal degeneration. Galectin-3, a b-galactose binding protein, is a potent driver of macrophage and microglia activation and has been implicated in neuroinflammation, including neurodegenerative diseases of the brain. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30172

18 Samples

Download data: TXT

(Submitter supplied) Both resident microglia and invading peripheral immune cells can respond to injury and degeneration in the central nervous system. However, after dead and dying neurons have been cleared and homeostasis is re-established, it is unknown whether resident immune cells fully resume normal functions and to what degree the peripheral immune cells take up residence. Using flow cytometry, in vivo retinal imaging, immunohistochemistry, and single-cell mRNA sequencing, we assess resident microglia and monocyte-derived macrophages in the retina during and after the loss of photoreceptors in the Arr1-/- mouse model of inducible degeneration. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

9 Samples

Download data: MTX, TSV

(Submitter supplied) PURPOSE: Hyperoxia is toxic to photoreceptors, and this toxicity may be important in the progress of retinal dystrophies. This microarray study examines gene expression induced in the C57BL/6J mouse retina by hyperoxia over the 14-day period during which photoreceptors first resist, then succumb to, hyperoxia. METHODS: Young adult C57BL/6J mice were exposed to hyperoxia (75% oxygen) for up to 14 days. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

8 Samples

Download data: CEL, CHP

(Submitter supplied) Vasoregression is a hallmark of vascular eye diseases but the mechanisms involved are still largely unknown. We have recently characterized a rat ciliopathy model which develops primary photoreceptor degeneration and secondary vasoregression. To improve the understanding of secondary vasoregression in retinal neurodegeneration, we used microarray techniques to compare gene expression profiles in this new model before and after retinal vasoregression. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS3846

Platform:

GPL1355

12 Samples

Download data: CEL

Analysis of retina from PKD-2-247 (TGR) males at 1 and 3 months of age (i.e., before and after retinal vasoregression). The TGR model develops primary photoreceptor degeneration and secondary vasoregression. Results provide insight into molecular mechanisms underlying development of vasoregression.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, transformed count, 2 age, 2 genotype/variation, 2 strain sets

Platform:

GPL1355

Series:

GSE20967

12 Samples

Download data: CEL

(Submitter supplied) retinal ganglion cells die after optic nerve injury, either crush or transection. The molecular causesunderlying this degeneration are largely unkwon the purpose of this job is to find which (if any) gene regulation triggers RGC death with the final goal of design neuroprotective protocols Keywords: time course

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS3374

Platform:

GPL1355

35 Samples

Download data: CEL

Temporal analysis of retinas of animals following intraorbital optic nerve transection (IONT) or intraorbital nerve crush (IONC). Optic nerve injury, which is more severe with IONT than IONC, triggers retinal ganglion cell death. Results provide insight into the molecular basis of this degeneration.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, transformed count, 3 protocol, 7 time sets

Platform:

GPL1355

Series:

GSE9918

35 Samples

Download data: CEL

(Submitter supplied) In chicks, the avian homologue of the early growth response protein-1 (ZENK) has been shown to be increased in a special cell type of the retina, the glucagonergic amacrine cells, under conditions that lead to a reduction in eye growth (myopic defocus, recovery of myopia) and decreased under conditions that enhance ocular growth (hyperopic defocus, form-deprivation). The investigation of Egr-1 knock-out mice showed that homozygous knock-out mice with no functional Egr-1 protein developed relative axial myopia at the age of 42 and 56 days, compared to heterozygous- and wildtype Egr-1 knock-out mice. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS3607

Platform:

GPL1261

16 Samples

Download data: CEL

Analysis of retinas of Egr-1 deficient animals at post-natal days 30 and 42. 42 day-old Egr-1 knockout animals have longer eyes and a more myopic refractive error compared to wild-types. Results provide insight into the molecular mechanisms regulating axial eye growth.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 age, 2 genotype/variation sets

Platform:

GPL1261

Series:

GSE16974

16 Samples

Download data: CEL

(Submitter supplied) The retina plays an important regulatory role in ocular growth. To screen for new retinal candidate genes that could be involved in the inhibition of ocular growth, we used chick microarrays to analyze the changes in retinal mRNA expression after myopic defocus was imposed by positive lens-wear. Chicks were raised under a 12h-light/12h-dark cycle (light-onset: 8:00 am and light-offset: 8:00 pm) with unrestricted access to water and food. more...

Organism:

Gallus gallus

Type:

Expression profiling by array

Platform:

GPL3213

8 Samples

Download data: CEL, EXP

(Submitter supplied) We utilized high-throughput RNA-seq to uncover the intermediate-sized noncoding RNAs invovled in UV-DNA Damage Responses in C. elegans. 450 novel transfrags were discovered, some of which show dramatic expression change between the UV irradiation and control. This study should lead to a better understanding of the role of is-ncRNAs invovled in UV-DDR.

Organism:

Caenorhabditis elegans

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL9309

3 Samples

Download data: WIG

(Submitter supplied) RNA Polymerase-II active regions were mapped comparing mouse neural retina tissue at age P25 and P2 to find novel gene activation predictions during maturation of photoreceptors. Over 800 predictions of increased activation were novel compared to previous mRNA expression array studies.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL5811

3 Samples

Download data: BED, CEL

(Submitter supplied) Sprague-Dawley rat retina post-injury and control samples Keywords = Gliosis, CNS injury

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS656

Platform:

GPL85

18 Samples

Download data

Examination of injured retinas from male Sprague-Dawleys. Retinas scraped and examined at 4 hours, 1, 3, 7, and 30 days post-injury. Results help characterize distinct phases of retinal injury response.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 2 protocol, 6 time sets

Platform:

GPL85

Series:

GSE1001

18 Samples

Download data

(Submitter supplied) Neuroinflammation commonly accompanies neurodegeneration, but the specific roles of resident and infiltrating immune cells during degeneration remains controversial. Much of the difficulty in assessing myeloid cell-specific functions during disease progression arises from the inability to clearly distinguish between activated microglia and bon e marrow-derived monocytes and macrophages in various stages of differentiation and activation within the central nervous system. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

2 Samples

Download data: MTX, TSV

(Submitter supplied) We previously reported that lifetime consumption of soy proteins or whey proteins reduced the incidence of azoxymethane (AOM)-induced colon tumors in rats. To obtain insights into these effects, global gene expression profiles of colons from rats with lifetime ingestion of casein (CAS, control diet), soy protein isolate (SPI), and whey protein hydrolysate (WPH) diets were determined. We identified 31 induced and 49 repressed genes in the proximal colons of the SPI-fed group and 44 induced and 119 repressed genes in the proximal colons of the WPH-fed group, relative to CAS. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS2468

Platform:

GPL85

9 Samples

Download data: CEL, EXP