Retinal degeneration

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Unknown (5628)
Transcriptomics (872)
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Genomic (5)
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Models (1)
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Organisms

Mus musculus (424)
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Heterocapsa sp. (1)
Butyrivibrio proteoclasticus B316 (1)
Pseudo-nitzschia multiseries (1)

Organisms

Mus musculus (250)
Homo sapiens (160)
Danio rerio (18)
Rattus norvegicus (18)
Astyanax mexicanus (5)
Canis lupus familiaris (5)
Drosophila melanogaster (4)
Macaca mulatta (3)
unidentified (3)
Pantherophis guttatus (2)
Anableps anableps (2)
Nothobranchius furzeri (2)
Oryctolagus cuniculus (2)
Mus musculus musculus (1)
Caenorhabditis elegans (1)
Felis catus (1)

Repository

ENA (556)
biostudies-arrayexpress (471)
geo (445)
pride (70)
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PanoramaPublic (5)
EVA (2)
ExpressionAtlas (1)
BioModels (1)
GNPS (1)
GPMDB (1)
PAXDB (1)
PeptideAtlas (1)

Tissue

Retina (30)
Cell culture (10)
Retinal cell (6)
Retinal pigment epithelial cell (6)
Epithelial cell (5)
Brain (3)
Retinal pigment epithelium cell (3)
Stem cell (3)
Vitreous humor (3)
Eye (2)
Head (2)
Neural retina (2)
Eye (1)
Blood plasma (1)
Cell suspension culture (1)
Choroid (1)
Embryonic stem cell (1)
Eye photoreceptor cell (1)
Ganglionic layer of retina (1)
Kidney (1)
Layer of retina (1)
Macrophage (1)
Microglial cell activation (1)
Monocyte (1)
Neuronal stem cell (1)
Permanent cell line cell (1)
Photoreceptor layer of retina (1)
Pluripotent stem cell (1)
Primary cell (1)
R1 photoreceptor cell (1)

Disease

Age related macular degeneration (13)
Retinal degeneration (10)
Normal (4)
Retinitis pigmentosa (4)
Retinal disease (3)
Colorectal cancer (2)
Disease free (2)
Glaucoma (2)
Optic atrophy 1 (2)
Cerebral degeneration (1)
Huntington's disease (1)
Ocular albinism (1)
Retinal detachment (1)
Parkinson's disease (1)
High bone mineral density (1)
Multibacillary (1)
Photoreceptor degeneration (1)
Spinal muscular atrophy (NCI Metathesaurus C0026847) has DiseaseStaging postsymptomatic (1)
Diminished Ovarian Reserve (DOR) (1)
Control (1)
Cataract (1)
Not Available (1)
Age related macular degeneration 1 (1)
Diabetes mellitus (1)
Diabetic retinopathy (1)
Epiretinal membrane (1)
Eye degenerative disease (1)
Inflammation (1)
Proliferative diabetic retinopathy (1)
Retinal degeneration (1)

Technology Type

Mass Spectrometry (70)
Shotgun proteomics (42)
Bottom-up proteomics (11)
Data-dependent acquisition (11)
Mass spectrometry assay (9)
SWATH MS (7)
Mass spectrometry (6)
Affinity purification coupled with mass spectrometry proteomics (6)
Data-independent acquisition (2)
SRM/MRM (2)
AB SOLiD 4 System, Illumina HiSeq 2000 (1)
HiSeq X Ten, ILLUMINA (1)
Illumina HiSeq 2000 (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Gel-based experiment (1)
MSE (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (31)
NextSeq 500 (10)
Illumina HiSeq 4000 (9)
NextSeq 550 (7)
NextSeq 2000 (5)
Illumina HiSeq 2500 (5)
Flow Cytometer (4)
BGISEQ-500 (4)
Illumina HiSeq 2000 (4)
Orbitrap Exploris 480 (4)
NA (3)
Thermomixer (2)
IScan (2)
NextSeq 1000 (2)
Racham server on Uppmax, NAISS (2)
FACS Aria-III (2)
Illumina MiSeq (2)
- (2)
Nanodrop 2000c spectrophotometer (1)
Real-time PCR Thermal Cycler (1)
BD FACSARIA III (1)
Fluidigm C1 (1)
GenePix Personal 4100A [Axon Instruments] (1)
ScanArray 4000XL [PerkinElmer] (1)
Scanning hardware (1)
Axon GenePix 4000B scanning hardware (1)
Flow cytometer (1)
Illumina NovaSeq X (1)
N/a (1)
Illumina HiSeq 3000 (1)

Publication Date

2026 (111)
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2022 (82)
2024 (75)
2010 (68)
2013 (65)
2023 (58)
2014 (56)
2012 (54)
2015 (53)
2011 (48)
2021 (41)
2020 (39)
2016 (37)
2019 (31)
2008 (26)
2018 (23)
2009 (21)
2017 (18)
2007 (14)
2006 (7)
2005 (6)
2004 (1)

UNIPROT ID/AC

1433B_HUMAN (1)
1433E_HUMAN (1)
1433F_HUMAN (1)
1433G_HUMAN (1)
1433S_HUMAN (1)
1433T_HUMAN (1)
1433Z_HUMAN (1)
6PGD_HUMAN (1)
6PGL_HUMAN (1)
9606.ENSP00000322421 (1)
9606.ENSP00000347168 (1)
9606.ENSP00000348924 (1)
9606.ENSP00000352119 (1)
9606.ENSP00000352627 (1)
9606.ENSP00000356391 (1)
9606.ENSP00000366679 (1)
9606.ENSP00000366956 (1)
9606.ENSP00000366962 (1)
9606.ENSP00000366974 (1)
9606.ENSP00000367034 (1)
9606.ENSP00000382982 (1)
9606.ENSP00000415840 (1)
9606.ENSP00000417240 (1)
9606.ENSP00000421191 (1)
9606.ENSP00000443017 (1)
9606.ENSP00000445633 (1)
9606.ENSP00000450540 (1)
9606.ENSP00000462355 (1)
9606.ENSP00000462667 (1)
9606.ENSP00000464265 (1)

ENSEMBL ID

ENSG00000170477 (1)

CHEBI ID

CHEBI:37998 (3)
CHEBI:16325 (3)
CHEBI:16755 (3)
CHEBI:9907 (3)
CHEBI:16525 (3)
CHEBI:28865 (3)
CHEBI:132579 (2)
CHEBI:65294 (2)
CHEBI:65302 (2)
CHEBI:65293 (2)
CHEBI:85851 (2)
CHEBI:66856 (2)
CHEBI:64521 (2)
CHEBI:64431 (2)
CHEBI:64446 (2)
CHEBI:66857 (2)
CHEBI:64516 (2)
CHEBI:64517 (2)
CHEBI:66849 (2)
CHEBI:66850 (2)
CHEBI:65303 (2)
CHEBI:64549 (2)
CHEBI:64566 (2)
CHEBI:64561 (2)
CHEBI:64568 (2)
CHEBI:16113 (2)
CHEBI:36259 (2)
CHEBI:180956 (2)
CHEBI:16811 (2)
CHEBI:28867 (2)

Metabolite Name

Glycine (3)
Isatin (3)
Lysine (3)
Indole-3-carboxaldehyde (3)
L-canavanine (2)
His-Glu (2)
Dibutyl adipate (2)
Noreugenin (2)
Tebuconazole (2)
Agmatine (2)
Lys-Tyr (2)
2'-deoxyinosine (2)
N-acetylhistidine (2)
2'-deoxycytidine (2)
N-(2-furoyl)glycine (2)
Lumazine (2)
Indole-3-pyruvic acid (2)
Ile-Phe (2)
Myosmine (2)
Histidine (2)
GLCA (2)
TLCA (2)
GDCA (2)
GCDCA (2)
TDCA (2)
TCDCA (2)
TUDCA (2)
GCA (2)
TCA (2)
LCA (2)

First Public Date

2026 (104)
2025 (88)
2024 (64)
2022 (61)
2023 (49)
2014 (45)
2021 (32)
2020 (31)
2019 (22)
2015 (17)
2017 (16)
2018 (11)
2016 (10)
2013 (6)

Modelling Approach

Ordinary differential equation model (1)

Study status

Recruiting (1)

Lab affiliation

Center for Translational Vision Research, Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, Irvine, CA, 92697, USA; Department of Physiology and Biophysics, Department of Chemistry, Department of Molecular Biology and Biochemistry; University of California, Irvine, Irvine, CA, 92697, USA (3)
Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, 451 Smyth Road, Ottawa, Ontario K1H 8M5, Canada (3)
Department of Pharmaceutical Sciences, School of Pharmacy and Pharmaceutical Sciences, University at Buffalo (2)
Institute of Molecular Medicine and Cell Research, University Freiburg (2)
Lecturer/Associate Professor, School of Biomolecular and Biomedical Science, UCD Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland (2)
1. Gavin Herbert Eye Institute - Center for Translational Vision Research, Department of Ophthalmology, University of California Irvine, CA, 92697, USA 2. Department of Physiology and Biophysics, School of Medicine, University of California Irvine, CA (1)
1.Center for Translational Vision Research, Gavin Herbert Eye Institute, Department of Ophthalmology, University of California-Irvine, Irvine, CA 92697, USA 2.Department of Ophthalmic Research, Cleveland Clinic, Cleveland, OH 44195, USA 3.Department of Physiology & Biophysics, School of Medicine, University of California-Irvine, Irvine, CA 92697, USA (1)
1Center for Advanced Vision Science, University of Virginia School of Medicine, Charlottesville, Virginia, USA (1)
1Department of Ophthalmology, Stem Cell Ocular Regenerative Medicine Center, Wilmer Eye Institute, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. (1)
Aarhus University (1)
Adele Niessen Professor of Ophthalmology Vice Chair for Research FM Kirby Center for Molecular Ophthalmology Scheie Eye Institute University of Pennsylvania (1)
Associate Professor, Centre for Myopia Research, School of Optometry, The Hong Kong Polytechnic University, Hong Kong SAR (1)
Barbara M. Braunger, Institute of Neuroanatomy, University Clinic Hamburg-Eppendorf, Hamburg, Germany (1)
Bascom Palmer Eye Institute University of Miami (1)
Bioanalytical Mass Spectrometry Group, Max-Planck-Institute for Biophysical Chemistry Department of Clinical Chemistry, University Medical Center Goettingen (1)
Boston Children's Hospital (1)
Cedars-Sinai Medical Center (1)
Dame Kate Campbell Fellow Department of Surgery| Melbourne Medical School Department of Anatomy and Physiology| School of Biomedical Sciences Faculty of Medicine, Dentistry and Health Sciences Medical Building (#181), Grattan Street The University of Melbourne, Victoria 3010 Australia P: +61 3 9035 5464 E: apebay@unimelb.edu.au W: https://medicine.unimelb.edu.au/school-structure/surgery W: https://biomedicalsciences.unimelb.edu.au/departments/anatomy-and-physiology (1)
Department Functional Proteomics Medizinisches Proteom-Center Ruhr-University Bochum Building ProDi Gesundheitscampus 4 44780 Bochum Germany (1)
Department of Biochemistry, Purdue University, 175 S. University Street, West Lafayette, Indiana 47907, USA (1)
Department of Experimental and Translational Ophthalmology, University Medical Center, Johannes Gutenberg University, Mainz, Germany (1)
Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine and Sagol School of Neurosciences, Tel Aviv University, Tel Aviv 69978, Israel (1)
Department of Medicine, section of Physiology and Biochemistry, University of Perugia (1)
Department of Ophthalmology, University of California, Irvine, CA 92697 (1)
Department of Ophthalmology, University of Cologne (1)
Departments of 1Neurobiology and 2Ophthalmology, Duke University School of Medicine, Durham, NC, USA (1)
Division of Neonatology, Department of Pediatrics, University of Miami Miller School of Medicine and Holtz Children’s Hospital, Jackson Health System, Miami, FL, USA. (1)
Eberhard Karls University Tübingen, Institute for Ophthalmic Research (1)
Eye & Vison Health, Flinders University School of Medicine Flinders Medical Center Flinders University Australia (1)
Faculty of Medicine, Department of Clinical Sciences Lund, Lund University, Ophthalmology, Lund, Sweden (1)

Keyword

Neglected Diseases (1)
Orphan Diseases (1)
Rare Disease Research (1)
Registries (1)
Batten Disease (1)
Mucolipidosis IV (1)
Undiagnosed (1)
Uncommon Disease (1)
Hypersomnia (1)
Marinesco-Sjogren Syndrome (1)
4p-/Wolf-Hirschhorn Syndrome (1)
Wiedermann-Steiner Syndrome (1)
Hemophagocytic Lymphohistiocytosis (HLH) (1)
Behcet’s Disease (1)
Jansen metaphyseal chondrodysplasia (1)
Chronic recurrent multifocal osteomyelitis (CRMO) (1)
Hereditary Sensory and Autonomic Neuropathy (1)
Nephropathic infantile cystinosis (1)
Ocular cystinosis (1)
Spinal Bulbar Muscular Atrophy (SBMA) (1)
Mucolipidosis (1)
Mitochondrial aminoacyl-tRNA synthetases (Mt-aaRS Disorders) (1)
Shine Syndrome (1)
Intestinal Bromhidrosis Syndrome (1)
Autosomal recessive extra oral halitosis (1)
CACNA1H mutation (1)
Dimethylglycine dehydrogenase deficiency (1)

IsPrivate

False (1)

Modification

15.9949 (1)
57.0215 (1)

Study type

Transcription profiling by array (275)
RNA-seq of coding RNA (75)
RNA-seq of coding RNA from single cells (24)
Comparative genomic hybridization by array (14)
Methylation profiling by array (10)
RNA-seq of non coding RNA (10)
Unknown experiment type (9)
Other (9)
MicroRNA profiling by array (6)
Animal - High-throughput sequencing (4)
ChIP-chip by array (4)
ChIP-seq (4)
ATAC-seq (3)
RNA-seq of total RNA (3)
High-throughput sequencing (2)
Cell line - High-throughput sequencing (2)
MicroRNA profiling by high throughput sequencing (2)
Cell line - Single-cell sequencing (1)
Cell line - Methylation microarray (1)
Baseline (1)
Human - Methylation microarray (1)
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Cell line - One-color microarray (1)
Transcription profiling by tiling array (1)
Bisulfite-seq (1)
Ribo-seq (1)
ScATAC-seq (1)
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Proteomic profiling by array (1)
Genotyping by high throughput sequencing (1)

Release Date

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2019 (354)
2018 (333)
2017 (319)
2016 (300)
2015 (269)
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2012 (153)
2010 (133)
2011 (122)
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2009 (77)
2008 (51)
2007 (46)
2006 (33)
2005 (23)
2002 (13)
2004 (11)
1999 (9)
2000 (5)
2003 (4)
2001 (4)
1998 (4)
1997 (3)

Location

United States (1)
Australia (1)

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Transcriptomic and proteomic retinal pigment epithelium signatures of age-related macular degeneration

To identify disease-specific transcriptional programs in retinal pigment epithelium (RPE) cells, fibroblasts from 43 patients with geographic atrophy (GA) were reprogrammed into induced pluripotent stem cells (iPSCs) before being differentiated into RPE and compared to those from 36 healthy individu...

ORGANISM(S): Homo sapiens

2022-06-20 | E-MTAB-11642 | biostudies-arrayexpress

Retinal pigment epithelium extracellular vesicles are potent inducers of age-related macular degeneration disease phenotype in the outer retina

Age-related macular degeneration (AMD) is a leading cause of blindness. Vision loss is caused by the loss of the retinal pigment epithelium (RPE) and photoreceptors and/or retinal and choroidal angiogenesis. Here we use AMD patient specific RPE cells with the Y402H high-risk polymorphism in the comp...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2022-01-21 | MSV000088713 | MassIVE

Transcription profiling of prCAD -/- mouse, a mouse model for retinal degeneration

This experiment was designed to identify transcripts that exhibit changes in abundance in the context of retinal degeneration by comparing transcript levels in adult wild type and prCAD -/- mouse retinas. Experiment Overall Design: Retinas were dissected from ~4 weeks old mice. Retinas from 3 prCA...

ORGANISM(S): Mus musculus

2008-04-07 | E-GEOD-10535 | biostudies-arrayexpress

Expression data for human retinal pigment epithelium (RPE)/choroid - early age-related macular degeneration (AMD) and control samples

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 m...

ORGANISM(S): Homo sapiens

2013-12-23 | E-GEOD-50195 | biostudies-arrayexpress

The first goal of the study was to find the genes that explain the difference in progression of age-related retinal degeneration (ageRD) between the inbred strains C57BL/6J-c2J (B6a) and BALB/cByJ (C). The specific goal was to find the candidate genes that explain the chromosome 6 and chromosome 10 ...

ORGANISM(S): Mus musculus

2010-05-12 | E-GEOD-18151 | biostudies-arrayexpress

Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa

Inherited retinal degenerations (IRDs) are a leading cause of blindness among the young population in the developed world. Approximately half of IRDs initially manifest as gradual loss of night vision and visual fields, characteristic of retinitis pigmentosa (RP). Due to challenges in genetic testi...

ORGANISM(S): Mus musculus (Mouse)

2024-10-10 | PXD052547 | Pride

Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa

ORGANISM(S): Mus musculus (Mouse)

2024-10-10 | PXD052549 | Pride

Retinal degeneration Retinal proteome Rpe65-/- Inherited retinal degenerations Rd10 Retinitis pigmentosa P23h

Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa

ORGANISM(S): Mus musculus (Mouse)

2024-10-10 | PXD052554 | Pride

Retinal degeneration Retinal proteome Rpe65-/- Inherited retinal degenerations Rd10 Retinitis pigmentosa P23h

Transcriptomic analysis of human retinal detachment (RD) reveals both inflammation and photoreceptor death

We have used surgical specimens to perform a differential analysis of the transcriptome of human retinal tissues following detachment. Data analysis reveals major involvement of the immune response in the disease and interindividual variation was monitored to unravel a second crucial aspect of the p...

ORGANISM(S): Homo sapiens

2012-03-06 | E-GEOD-28133 | biostudies-arrayexpress

Whole genome methylation profiling of the retinal pigment epithelium of individuals with age-related macular degeneration

Illumina Infinium HumanMethylation450 BeadChip data from genomic DNA of retinal pigment epithelium from Age-related Macular Degeneration patients or age-matched controls.

ORGANISM(S): Homo sapiens

2019-08-01 | E-MTAB-7183 | biostudies-arrayexpress

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