GEO DataSets

(Submitter supplied) Purpose: The goals of this study were to identify cell specific expression patterns of the retinal pigment epithelium (RPE) and a variety of choroidal cell types originating from the macula and the periphery of human donor eyes, with a particular emphasis on identifying expression signatures of choroidal endothelial cells. Methods: Independent libraries were prepared for macular and peripheral samples of combined RPE/choroid from seven donors in two single cell sequencing experiments. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

14 Samples

Download data: TSV

(Submitter supplied) Retinal RNA profiles from macula and periphery of each eye were generated by single-cell sequencing. M11-M14 are macula retina and P11-P14 are peripheral retina from the same 78 year old donor. M21-M24 are macula retina and P21-P24 are peripheral retina from the same 90-year-old donor.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

16 Samples

Download data: CSV, MTX, TSV, TXT

(Submitter supplied) Retinal RNA profiles from macula and periphery of each eye were generated by deep sequencing on an Illumina Hi-Seq. 12 biological samples were analyzed.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

56 Samples

Download data: CXB

(Submitter supplied) Purpose: The goals of this study were to identify cell specific expression patterns from infant and aged choroid, with a particular emphasis on how endothelial gene expression changes with age. Methods: Independent libraries were prepared for infant and adult choroidal cells from four human donors. Macular and peripheral samples from single-cell donors 18-21 were acquired, analyzed, and uploaded in a previous experiment (GSE135922). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

8 Samples

Download data: TSV

(Submitter supplied) Retinal pigment epithelial (RPE) cells and choroidal stromal fibroblast (CSF) were isolated from healthy human donor eyes. Cells were cultured and RNA extracted.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13607

4 Samples

Download data: TXT

(Submitter supplied) Age related macular degeneration (AMD) is the most prominent cause of blindness in the developed countries. Vision loss in the advanced stages of the disease is caused by atrophy of retinal photoreceptors, overlaying retinal pigment epithelium (RPE) and choroid endothelial cells. The molecular events that underline the development of these cell types from in utero to adult as well as the progression from the asymptomatic, to intermediate and advanced stages AMD are not yet fully understood. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

13 Samples

Download data: CSV

(Submitter supplied) 11 samples total with libraries prepared on 10X Chromium. Corresponding to 4 control eyes.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

11 Samples

Download data: TXT

(Submitter supplied) Bulk RNAseq of retina and RPE/choroid tissue, each from the macula or non-macula (peripheral) regions of human donor eyes.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

537 Samples

Download data: TSV

(Submitter supplied) To determine mouse retinal pigment epithelium (RPE) specific gene expression, we compared the gene expression profile of the RPE to the gene expression of its adjacent layers: the choroid (CH) and photoreceptors (PR). We collected the tissues using the meticulous laser dissection microscopy. Next, we performed RNA isolation, amplification, labeling and hybridization against 44k Agilent microarrays. Compared RPE gene expression with CH gene expression, and with PR gene expression

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL10333

9 Samples

Download data: TXT

(Submitter supplied) To characterize underlying changes in the retinal pigment epithelium (RPE)/choroid with age, we produced gene expression profiles for the RPE/choroid and compared the transcriptional profiles of the RPE/choroid from young and old mice. The changes in the aged RPE/choroid suggest that the tissue has become immunologically active. Such phenotypic changes in the normal aged RPE/choroid may provide a background for the development of age-related macular degeneration. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

8 Samples

Download data: CEL, CHP

(Submitter supplied) Purpose: Age-related degeneration (AMD) is a major cause of blindness in developed countries. The molecular pathogenesis of early events in AMD is poorly understood. We investigated differential gene expression in samples of human retinal pigment epithelium (RPE)/choroid from early AMD and control maculas using exon-based arrays. Methods: Gene expression levels in nine early AMD and nine control human donor eyes were assessed using Affymetrix Human Exon ST 1.0 arrays. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17629

16 Samples

Download data: CEL

(Submitter supplied) Age-related macular degeneration (AMD) is a leading cause of human blindness in developed countries. While significant inroads have been made over the past decade, an integrated description of the molecular mechanisms underlying AMD has yet to emerge. Here we describe a systems-level transcriptome analysis of the retina and retinal pigmented epithelium (RPE)-choroid complex from 31 normal, 26 AMD, and 11 potential pre-AMD human eyes derived from the University of Iowa. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

293 Samples

Download data: TXT

(Submitter supplied) Purpose: The goals of this study were to identify cell specific expression patterns from infant and aged choroid, with a particular emphasis on how endothelial gene expression changes with age. Methods: Independent libraries were prepared for infant and adult choroidal cells from seventeen human donors. Trephine punch biopsies were used to acquire central RPE and choroidal tissue (infants: 4 mm punch biopsy; adults: 8 mm hemisected punch biopsy). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

17 Samples

Download data: XLSX

(Submitter supplied) Single Cell RNA-Seq of normal and AMD eyes

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

12 Samples

Download data: MTX, TSV

(Submitter supplied) Age-related macular degeneration (AMD) is a common, blinding disease of the elderly in which macular photoreceptor cells, retinal pigment epithelium, and choriocapillaris endothelial cells ultimately degenerate. Recent studies have found that degeneration of the choriocapillaris occurs early in this disease and that this endothelial cell dropout is concomitant with increased deposition of the complement membrane attack complex (MAC) at the choroidal endothelium. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14954

6 Samples

Download data: TXT

(Submitter supplied) Analysis of retinal and RCS tissues revealed a significant differential expression of noncoding RNA and anti-sense transcripts in AMD when compared to the normal tissues.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

31 Samples

Download data: TXT

(Submitter supplied) We sought to understand how the RPE confers region-specific disease susceptibility in the retina by examining heterogeneity within human donor RPE. We profiled RPE nuclei from the macular and peripheral retina using joint single-cell RNA and ATAC sequencing.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24676

16 Samples

Download data: CSV

(Submitter supplied) The macula and fovea comprise a highly sensitive visual detection tissue that is susceptible to common disease processes such as age-related macular degeneration (AMD).  Unfortunately our understanding of the molecular determinants of high acuity vision remains unclear, as few model organisms possess a human-like fovea.  We explore transcription factor networks and receptor-ligand interactions to elucidate tissue interactions in the macula and peripheral retina and concomitant changes in the underlying retinal pigment epithelium (RPE)/choroid. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23949

136 Samples

Download data: TSV

(Submitter supplied) Purpose: The goals of this study were to identify expression patterns in human macular neovascularization with spatial transcriptomics Methods: Independent libraries were prepared two human donors: one with macular neovascularation (MNV) and one healthy control. Three tissue sections were taken from the MNV donor and two from the control donor. From the right eyes of both donors, a 4 mm diameter macular punch was collected centered on the fovea centralis, as was a 4 mm peripheral punch approximately 12 mm superotemporal from the macula. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

5 Samples

Download data: CSV, TIFF

(Submitter supplied) Injuries to the retinal pigment epithelium (RPE) and outer retina often result in the accumulation of retinal microglia within the subretinal space. These subretinal microglia play crucial roles in inflammation and resolution, but the mechanisms governing their functions are still largely unknown. Our previous research highlighted the protective functions of choroidal gd T cells in response to RPE injury. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

2 Samples

Download data: MTX, TSV