Rpe - OmicsDI

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Transcriptomics (9865)
Unknown (3211)
Genomics (2131)
Proteomics (401)
Metabolomics (111)
Other (32)
Models (22)
Clinical (6)
Methylation profiling (5)
Multiomics (4)
Genomic (2)

Organisms

Homo sapiens (4401)
Mus musculus (2438)
Saccharomyces cerevisiae (379)
Drosophila melanogaster (333)
Arabidopsis thaliana (308)
Rattus norvegicus (272)
Danio rerio (165)
Caenorhabditis elegans (128)
Sus scrofa (104)
Schizosaccharomyces pombe (96)
Gallus gallus (88)
Bos taurus (78)
Escherichia coli (74)
Thermus thermophilus HB8 (69)
Candida albicans (67)
Salmo salar (54)
Salmonella enterica subsp. enterica serovar Typhimurium (50)
Staphylococcus aureus (45)
Apis mellifera (41)
Mycobacterium tuberculosis (41)
Zea mays (35)
Oncorhynchus mykiss (35)
Glycine max (33)
Rhizobium leguminosarum (30)
Rattus rattus (27)
Triticum aestivum (25)
Ovis aries (24)
Haemophilus influenzae 22.1-21 (1)
Nitrosomonas europaea (1)
Staphylococcus epidermidis ATCC 12228 (1)

Organisms

Homo sapiens (355)
Mus musculus (173)
Danio rerio (15)
Gallus gallus (12)
Rattus norvegicus (5)
unidentified (5)
Macaca mulatta (3)
Macaca fascicularis (2)
Chlorocebus sabaeus (2)
Rickettsia prowazekii str. BuV67-CWPP (1)
Ostrea edulis (1)
Ictidomys tridecemlineatus (1)
Mycobacterium tuberculosis H37Rv (1)
Nothobranchius furzeri (1)
Salmonella enterica (1)
Canis lupus familiaris (1)
Malus domestica (1)
Mycobacterium tuberculosis (1)
Arabidopsis thaliana (1)

Repository

biostudies-arrayexpress (10356)
ENA (709)
EGA (574)
geo (448)
MassIVE (173)
MetaboLights (108)
pride (101)
jPOST (38)
BioModels (21)
iProX (20)
PanoramaPublic (17)
LINCS (11)
PAXDB (10)
GPMDB (7)
EVA (6)
GNPS (3)
dbGaP (2)
ExpressionAtlas (1)
Cell Collective (1)
PeptideAtlas (1)

Tissue

Epithelial cell (38)
Cell culture (28)
Retinal pigment epithelial cell (11)
Retinal pigment epithelium cell (9)
Retina (8)
Retinal pigment epithelium cell line (5)
HTERT-RPE1 cell (4)
Retinal pigment epithelium (4)
Eye (3)
Choroid (2)
Vitreous humor (2)
Embryonic stem cell (2)
Blood plasma (2)
Stem cell (2)
Primary cell (2)
Kidney (2)
Female Reproductive System (1)
Neuroblast proliferation (1)
Photoreceptor layer of retina (1)
Neural retina (1)
Iris (1)
Choroidal cell of the eye (1)
Ciliary body (1)
Pluripotent stem cell (1)
Prostate gland (1)
Lymph node (1)
Cell suspension culture (1)
Embryo (1)
Spleen (1)
Permanent cell line cell (1)

Disease

Normal (75)
Breast cancer (11)
Neuroblastoma (8)
Colorectal cancer (6)
Chronic lymphocytic leukemia (6)
Glioblastoma (6)
Melanoma (5)
Reference (4)
Adenocarcinoma (4)
Acute myeloid leukemia (4)
Rheumatoid arthritis (3)
Colon cancer (3)
Pre-diabetic (3)
NA (3)
Prostate cancer (3)
Not applicable (3)
ACUTE MYELOID LEUKEMIA (2)
Squamous Cell Carcinoma (2)
Primary tumor (2)
Malignant melanoma (2)
Leukemia (2)
Hyperglycaemic (2)
Colon adenocarcinoma (2)
Chronic myeloid leukemia (2)
Head and neck squamous cell carcinoma (2)
Cancer (2)
Mammary tumor (2)
Acute promyelocytic leukemia (2)
Gastric cancer (2)
No disease (2)

Technology Type

Illumina HiSeq 2000 (23)
Illumina MiSeq (13)
Illumina HiSeq 2500, ILLUMINA (11)
ILLUMINA, Illumina HiSeq 2500 (7)
Illumina HiSeq 2500 (4)
Illumina HiSeq 2000, ILLUMINA (3)
Illumina Genome Analyzer II (3)
Illumina MiSeq, ILLUMINA (2)
Illumina HiSeq 2500, ILLUMINA, Illumina HiSeq 2000 (2)
Illumina HiSeq 2500, Illumina HiSeq 2000 (2)
ILLUMINA, Low Pass Whole Genome Sequencing (LP-WGS), Illumina NovaSeq 6000, Illumina Genome Analyzer II, SNP array (1)
Illumina MiSeq, HiSeq X Ten, NextSeq 500, Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (1)
Illumina CytoSNP 12 bead array, nanostring (1)
ILLUMINA, Illumina HiSeq 1000 (1)
Illumina humanomniexpress-24-v1-1, humanomniexpress-24-v1-1, Illumina HumanOmniExpress-12-v1-0, Illumina HumanOmni1-Quad_v1-0, HumanOmni25-8v1-2_A1, HumanOmniExpress-12-v1-0 (1)
Illumina Multi-EthnicGlobal_A1 (1)
Illumina InfiniumCoreExome-24v1-1_A (1)
SNP6, ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2500, ILLUMINA, NextSeq 500 (1)
ILLUMINA, HiSeq X Ten (1)
ABI_SOLID, Illumina HiSeq 2000, Illumina 450K, AB 5500xl Genetic Analyzer, AB 5500 Genetic Analyzer, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 4000, Illumina HiSeq 2500 (1)
Illumina HiSeq 2500, ILLUMINA, Illumina MiSeq, NextSeq 500 (1)
ILLUMINA, Illumina HiSeq 2500, HiSeq X Ten (1)
HiSeq X Ten, ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HiSeq 4000, ILLUMINA (1)
Illumina HumanCoreExome-12v1-0_A and HumanCoreExome-24v1-0_A, Illumina Human670-QuadCustom_v1_A (1)
Illumina HumanMethylation450 (1)
Illumina HumanMethylation 450K (1)
Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (1)

Instrument Platform

Illumina NovaSeq 6000 (295)
Illumina HiSeq 2500 (244)
Illumina HiSeq 2000 (227)
NextSeq 500 (222)
Illumina HiSeq 4000 (160)
Illumina MiSeq (73)
NextSeq 550 (68)
Scanning hardware (41)
Illumina Genome Analyzer II (39)
NextSeq 2000 (38)
Illumina NovaSeq X (36)
Illumina HiSeq 1500 (22)
Axon GenePix 4000B scanning hardware (21)
Illumina Genome Analyzer IIx (20)
GenePix 4000B [Axon Instruments] (19)
GenePix 4000A [Axon Instruments] (18)
Axon GenePix 4000A scanning hardware (17)
Axon- GenePix4000B (15)
Illumina HiSeq 3000 (15)
ScanArray Express HT (13)
DNBSEQ-G400 (13)
Illumina HiSeq 1000 (12)
G2565BA DNA microarray scanner [Agilent] (10)
ArrayWoRx Biochip Reader [Applied Precision] (9)
Other (9)
418 [Affymetrix] (9)
Variable Atmosphere Incubator (9)
G2565AA DNA microarray scanner [Agilent] (8)
NA (8)
Agilent 2100 Bioanalyzer (7)

Publication Date

2010 (1568)
2013 (1179)
2014 (1100)
2012 (1011)
2015 (957)
2011 (868)
2016 (653)
2008 (507)
2009 (435)
2007 (302)
2021 (271)
2022 (265)
2025 (261)
2026 (261)
2024 (255)
2023 (246)
2020 (210)
2017 (197)
2005 (166)
2019 (162)
2018 (159)
2006 (150)
2004 (82)
2003 (19)
2002 (6)
2001 (2)

UNIPROT ID/AC

Q8CA95 (2)
P62137 (2)
Q9ERT9 (2)
P49615 (2)
Q6P1F6 (2)
P63330 (2)
Q60829 (2)
P63328 (2)
P48453 (2)
Q63810 (2)
Q63811 (2)
P48455 (2)
Q9DBC7 (2)
P12849 (2)
P68181 (2)
Q01063 (2)
P62204 (2)
P84309 (2)
P63213 (2)
P62874 (2)
B2RSH2 (2)
P05132 (2)
Q01813 (2)
Q76MZ3 (2)
P14618 (2)
P17858 (2)
P21439 (2)
P05062 (2)
P09972 (2)
P04075 (2)

ENSEMBL ID

ENSG00000204131 (1)
ENSG00000229353 (1)
ENSG00000247315 (1)
ENSG00000147251 (1)
ENSG00000170477 (1)

CHEBI ID

CHEBI:15971 (34)
CHEBI:17895 (32)
CHEBI:17203 (31)
CHEBI:16704 (31)
CHEBI:17295 (31)
CHEBI:17568 (29)
CHEBI:16335 (28)
CHEBI:16027 (28)
CHEBI:15603 (28)
CHEBI:17191 (28)
CHEBI:16414 (28)
CHEBI:4167 (27)
CHEBI:16750 (27)
CHEBI:18107 (25)
CHEBI:16828 (24)
CHEBI:16643 (24)
CHEBI:17196 (23)
CHEBI:17562 (23)
CHEBI:15996 (16)
CHEBI:17552 (16)
CHEBI:15422 (16)
CHEBI:57692 (15)
CHEBI:18191 (15)
CHEBI:17544 (15)
CHEBI:29101 (15)
CHEBI:17232 (15)
CHEBI:16189 (15)
CHEBI:17013 (15)
CHEBI:15698 (15)
CHEBI:16349 (15)

Metabolite Name

Creatinine (18)
Taurine (17)
Creatine (16)
Hypoxanthine (14)
L-Glutamine (13)
Glycine (12)
Myo-inositol (12)
L-Histidine (12)
Isoleucine (12)
L-Tyrosine (12)
Creatine (11)
Beta-alanine (11)
Valine (11)
L-Arginine (11)
Choline (11)
Citric acid (11)
Alanine (11)
Inosine (11)
Leucine (10)
Glycine (10)
Taurine (10)
L-alanine (10)
L-Proline (10)
Ornithine (10)
Lactate (10)
Phenylalanine (10)
Glutamine (10)
Tryptophan (10)
L-Phenylalanine (10)
Proline (9)

First Public Date

2025 (102)
2026 (94)
2024 (92)
2022 (68)
2023 (65)
2021 (62)
2014 (56)
2020 (47)
2019 (33)
2018 (26)
2017 (25)
2015 (23)
2016 (11)
2013 (5)

Modelling Approach

Constraint-based model (16)
Ordinary differential equation model (3)
Metabolic network (2)

Study status

Recruiting (3)
Terminated (1)
Active, not recruiting (1)
Completed (1)

Lab affiliation

University of Bristol (8)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (6)
Laboratory of Protein Metabolism, Tokyo Metropolitan Institute of Medical Science, Tokyo, Japan (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)
Institute of Molecular Medicine and Cell Research, University Freiburg (2)
University of Bristol, School of Biochemistry (2)
Institute of Biochemistry II, Faculty of Medicine, Goethe University, Theodor-Stern-Kai 7, D-60590 Frankfurt am Main, Germany (2)
Department of Genome Integrity, Institute of Molecular Genetics of the Czech Academy of Sciences, Prague, Czech Republic (2)
Proteomics core facility, Biomedical Research Institute, Seoul National University Hospital (2)
University of Pittsburgh School of Medicine, Ophthalmology department (1)
Institute of Molecular Biology (IMB), Chromatin Biology & Proteomics, Mainz, Germany Institute of Developmental Biology and Neurobiology (IDN), Johannes Gutenberg-Universität, Mainz, Germany (1)
UTHSC (1)
Wilmer Eye Institute, Johns Hopkins University, Baltimore, Maryland, United States of America (1)
Department of Biomedical engineering, Lerner Research Institute, Cleveland Clinic (1)
Laboratory of RNA Biology Institute of Molecular Genetics of the Czech Academy of Sciences Prague, Czechia (1)
Tianjin Medical University Eye Hospital, Tianjin Medical University Ophthalmology Research Institute，Tianjin,300384 (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)
Division of Cancer Biology, Institute of Cancer Research, 237 Fulham road, London SW3 6JB, UK. (1)
The Wellcome-Wolfson Institute for Experimental Medicine, School of Medicine, Dentistry and Biomedical Science, Queen's University Belfast, Belfast, Northern Ireland, UK. (1)
Laboratory of Transcriptional Networks; Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Trento, Italy (1)
Dipartimento di Scienze Chimiche, Farmaceutiche ed Agrarie, Università degli Studi di Ferrara (1)
School of Biochemistry, University of Bristol, UK. (1)
Department of Pathology, Johns Hopkins Medical School, USA (1)
Duke University, Albert Eye Research Institute (1)
Department of Cell Biology, Zhejiang University School of Medicine, Hangzhou, Zhejiang, China (1)
Bioanalytical Mass Spectrometry Group, Max-Planck-Institute for Biophysical Chemistry Department of Clinical Chemistry, University Medical Center Goettingen (1)
Department of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center; Vanderbilt-Ingram Cancer Center; Vanderbilt Center for Immunobiology, and Vanderbilt Institute for Infection, Immunology, and Inflammation, Nashville, TN, 37232-2363, USA., (1)
Institute for Ophthalmic Research Eberhard-Karls University of Tuebingen Elfriede-Aulhorn-Str. 7 D-72076 Tuebingen. Germany. (1)
Research Unit Protein Science Helmholtz Center Munich Germany (1)
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)

IsPrivate

False (21)

Submitter Keywords

FROG (6)
Not Peer Reviewed (2)

Classification

bacteria (4)

Modification

4x(15)N labeled L-arginine (2)

Study type

Transcription profiling by array (5920)
RNA-seq of coding RNA (1247)
ChIP-seq (635)
Unknown experiment type (318)
Comparative genomic hybridization by array (229)
ChIP-chip by tiling array (211)
RNA-seq of coding RNA from single cells (208)
Other (198)
RNA-seq of non coding RNA (181)
ChIP-chip by array (141)
Methylation profiling by array (130)
Methylation profiling by high throughput sequencing (108)
Transcription profiling by tiling array (86)
MicroRNA profiling by array (75)
RNA-seq of total RNA (71)
DNA-seq (56)
Transcription profiling by RT-PCR (54)
Proteomic profiling by array (42)
Cell line - High-throughput sequencing (39)
ATAC-seq (28)
Genotyping by array (26)
Animal - High-throughput sequencing (25)
High-throughput sequencing (22)
Spatial transcriptomics by high-throughput sequencing (18)
CLIP-seq (16)
MicroRNA profiling by high throughput sequencing (16)
RIP-seq (16)
Human - High-throughput sequencing (15)
CUT&RUN (14)
Ribo-seq (13)

Release Date

2010 (1598)
2013 (1241)
2014 (1184)
2015 (1063)
2012 (1056)
2011 (905)
2016 (787)
2022 (522)
2008 (521)
2021 (511)
2025 (509)
2009 (461)
2023 (455)
2020 (454)
2024 (396)
2019 (327)
2017 (324)
2007 (321)
2018 (286)
2026 (194)
2005 (174)
2006 (156)
2004 (87)
2003 (18)
2002 (9)
2001 (1)
2000 (1)
1997 (1)
1996 (1)

Location

Australia (6)

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RPE Redifferentiation (miRNA)

Retinal Pigment Epithelial (RPE) cells are located behind the retina and are critical for photoreceptor survival. Loss of RPE is associated with several pathogenic conditions such as Age Related Macular Degeneration and Retinitis Pigmentosa. RPE derived from human embryonic stem cells (hESC) offer a...

ORGANISM(S): Homo sapiens

2013-01-17 | E-MTAB-960 | biostudies-arrayexpress

Characterization of hES derived Retinal Pigment Epithelial (RPE). RPE proliferation involves a non-classical Epithelial-Mesenchymal Transition (EMT).

ORGANISM(S): Homo sapiens

2012-10-24 | E-MTAB-854 | biostudies-arrayexpress

Expression data from human induced pluripotent stem cells derived retinal pigment epithelium (hiPSC-RPE)

We generated hiPSCs from patients fibloblast with retinitis pigmentosa (RP) using retrovirus and Sendai virus vectors, which we differentiated into hiPSC derived retinal pigment epithelium using two different methods (SDIA and SFEB methods). We investigated whether these hiPSC-RPE colonies, which we...

ORGANISM(S): Homo sapiens

2014-11-03 | E-GEOD-50738 | biostudies-arrayexpress

N-terminomic analysis of RPE secretome

Identification of HtrA1 substrate in the context of RPE secretome

ORGANISM(S): Homo sapiens (Human)

2018-04-09 | PXD007139 | Pride

Human rpe Htra1

In vivo Gene Expression Profiling of RPE/choroid Post-Intravitreal Injections of Dexamethasone and Triamcinolone at Clinically Relevant Time Points for Patient Care

PURPOSE To identify retinal pigment epithelial (RPE)/choroid genes and their relevant expression pathways affected by intravitreal injections of dexamethasone and triamcinolone acetonide in mice at clinically relevant time points for patient care. METHODS Differential gene expression of over 3...

ORGANISM(S): Mus musculus

2016-08-01 | E-GEOD-49872 | biostudies-arrayexpress

RNA-Seq of retina and RPE/choroid tissues from wild type, Abca4 knockout and Abca4 L541P;A1038V knockin mice

We report RNA-Seq analysis of the transcriptome of retinas and RPE/choroids from Abca4 knockout, Abca4 L541P;A1038V knockin and control wild type mice in order to better understand changes in gene regulation that could lead to retinal pathology in mice with ABCA4 deficiency/defect. Retinal and RPE/c...

ORGANISM(S): Mus musculus

2015-04-07 | E-GEOD-63772 | biostudies-arrayexpress

mouse retinal pigmented epithelium (RPE)-LC/MS/MS

In this experiment, we compared the phosphorylated protein profile of Cryba1 cKO (RPE-specific) RPE tissue and that of the age-matched control samples.

ORGANISM(S): Mus musculus (Mouse)

2021-09-07 | PXD026777 | Pride

Mouse Lc/ms/ms Rpe

TMT-MS of PCIF1 siRNAs treated RPE-1 cells

RPE-1 cells treated with the indicated siRNAs for 48 h were subjected to the tandem mass tag quantitative proteomics analysis.Carry out relative protein quantification analysis using tandem mass tag mass spectrometry in RPE-1 cells to investigate the mechanism underlying PCIF1 attenuates ciliation.

ORGANISM(S): Homo sapiens (Human)

2024-03-21 | PXD044338 | Pride

Pcif1 Rpe-1 Tmt-ms

Cell-autonomous restoration of splicing homeostasis and RP11 phenotype in patient-derived RPE and retinal organoids by PRPF31.AAV gene therapy

Mutations in PRPF31 cause Retinitis pigmentosa type 11 (RP11) through haploinsufficiency, impairing spliceosome assembly and triggering progressive retinal degeneration. While gene augmentation holds therapeutic promise, key questions remain regarding the mechanistic basis of rescue and its therapeu...

ORGANISM(S): Homo sapiens (Human)

2026-09-30 | PXD076430 | Pride

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

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