Rpe cells - OmicsDI

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Transcriptomics (7038)
Unknown (1836)
Genomics (1455)
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Organisms

Homo sapiens (3430)
Mus musculus (1959)
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Homo sapiens (296)
Mus musculus (93)
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unidentified (5)
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Repository

biostudies-arrayexpress (7478)
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pride (77)
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GPMDB (2)
PAXDB (2)
ExpressionAtlas (1)
Cell Collective (1)
GNPS (1)
PeptideAtlas (1)

Tissue

Epithelial cell (34)
Cell culture (24)
Retinal pigment epithelial cell (10)
Retinal pigment epithelium cell (6)
HTERT-RPE1 cell (4)
Retinal pigment epithelium cell line (3)
Choroid (2)
Embryonic stem cell (2)
Primary cell (2)
Retina (2)
Retinal pigment epithelium (2)
Stem cell (2)
Others (1)
Blood cell (1)
Blood plasma (1)
Choroidal cell of the eye (1)
Ciliary body (1)
Embryo (1)
Eye (1)
Iris (1)
Kidney (1)
Monocyte (1)
Neuroblast proliferation (1)
Permanent cell line cell (1)
Pluripotent stem cell (1)
Vitreous humor (1)

Disease

Normal (49)
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Rheumatoid arthritis (3)
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Colon cancer (3)
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Reference (3)
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Not applicable (3)
Squamous Cell Carcinoma (2)
Malignant melanoma (2)
Leukemia (2)
Colon adenocarcinoma (2)
Chronic myeloid leukemia (2)
Head and neck squamous cell carcinoma (2)
Cancer (2)
Melanoma (2)
Mammary tumor (2)
Acute promyelocytic leukemia (2)
No disease (2)
Osteosarcoma (2)
Colorectal adenocarcinoma (2)
Prostate cancer (2)
Prostate carcinoma (2)
Carcinoma (2)
Lung cancer (2)
Central nervous system cancer (2)

Technology Type

Mass spectrometry (26)
Illumina HiSeq 2000 (10)
Illumina MiSeq (10)
Flow cytometry (7)
L1000 (7)
Illumina HiSeq 2500, ILLUMINA (4)
Fluorescence imaging (4)
Fluorescence intensity (4)
Illumina HiSeq 2500 (3)
Illumina MiSeq, ILLUMINA (2)
Illumina HiSeq 2500, Illumina HiSeq 2000 (2)
Illumina CytoSNP 12 bead array, nanostring (1)
ILLUMINA, Illumina HiSeq 1000 (1)
Illumina HiSeq 2500, ILLUMINA, NextSeq 500 (1)
Illumina HiSeq 2500, ILLUMINA, Illumina MiSeq, NextSeq 500 (1)
Illumina HiSeq 4000, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HumanMethylation 450K (1)
Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (1)
Affymetrix SNP 6.0 (1)
Illumina HiSeq 2000, Illumina HiSeq 2500 (ILLUMINA), ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HiSeq 2500 (ILLUMINA), Illumina HiSeq 2000, Illumina HiSeq 2500, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina MiSeq (1)
Illumina HiSeq 2000, Affymetrix SNP 6.0 (1)
Illumina HiSeq 2500, ILLUMINA, Illumina MiSeq (1)
Illumina 2.5M, Illumina HiSeq 2000 (1)
Illumina MiSeq, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, ILLUMINA (1)
Illumina Genome Analyzer II (1)

Instrument Platform

Illumina NovaSeq 6000 (237)
NextSeq 500 (195)
Illumina HiSeq 2500 (159)
Illumina HiSeq 2000 (137)
Illumina HiSeq 4000 (133)
NextSeq 550 (61)
Illumina MiSeq (46)
NextSeq 2000 (34)
Illumina NovaSeq X (30)
Scanning hardware (24)
Illumina Genome Analyzer II (21)
Illumina HiSeq 1500 (21)
Illumina Genome Analyzer IIx (13)
GenePix 4000B [Axon Instruments] (13)
Axon GenePix 4000B scanning hardware (13)
Illumina HiSeq 3000 (13)
Axon GenePix 4000A scanning hardware (12)
GenePix 4000A [Axon Instruments] (12)
ScanArray Express HT (12)
DNBSEQ-G400 (11)
418 [Affymetrix] (9)
Axon- GenePix4000B (8)
Variable Atmosphere Incubator (8)
ScanArray Lite [PerkinElmer] (7)
G2565AA DNA microarray scanner [Agilent] (7)
G2565BA DNA microarray scanner [Agilent] (7)
NA (7)
Illumina HiSeq 1000 (7)
Agilent 2100 Bioanalyzer (6)
Other (6)

Publication Date

2010 (1070)
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2015 (699)
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2008 (361)
2009 (297)
2007 (213)
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2020 (149)
2017 (136)
2005 (120)
2019 (118)
2018 (118)
2006 (100)
2004 (57)
2003 (11)
2002 (4)
2001 (1)

UNIPROT ID/AC

Q01813 (2)
P14618 (2)
P17858 (2)
P21439 (2)
P05062 (2)
P09972 (2)
P04075 (2)
P07738 (2)
P00338 (2)
P07195 (2)
P04406 (2)
P43490 (2)
P30613 (2)
P06744 (2)
P06733 (2)
P09104 (2)
P13929 (2)
P08237 (2)
O14556 (2)
P00558 (2)
P07205 (2)
P18669 (2)
P60174 (2)
1433B_MOUSE (1)
1433E_MOUSE (1)
1433F_MOUSE (1)
1433G_MOUSE (1)
1433T_MOUSE (1)
1433Z_MOUSE (1)
2A5A_MOUSE (1)

CHEBI ID

CHEBI:18183 (12)
CHEBI:30746 (9)
CHEBI:7916 (7)
CHEBI:16530 (6)
CHEBI:27859 (3)
CHEBI:30309 (3)
CHEBI:12770 (3)
CHEBI:20616 (3)
CHEBI:2102 (3)
CHEBI:12769 (3)
CHEBI:12767 (3)
CHEBI:30310 (3)
CHEBI:20614 (3)
CHEBI:30311 (3)
CHEBI:17120 (3)
CHEBI:27585 (3)
CHEBI:37574 (3)
CHEBI:10049 (3)
CHEBI:67119 (3)
CHEBI:57692 (3)
CHEBI:17150 (3)
CHEBI:29035 (3)
CHEBI:506227 (3)
CHEBI:37565 (3)
CHEBI:10735 (3)
CHEBI:57371 (3)
CHEBI:10727 (3)
CHEBI:58533 (3)
CHEBI:597326 (3)
CHEBI:10725 (3)

Metabolite Name

Taurine (6)
Choline (6)
Creatine (6)
Glycine (6)
Uridine (5)
Inosine (5)
Adenosine (5)
Spermidine (5)
Myo-inositol (5)
Isoleucine (5)
UDP-N-acetylglucosamine (4)
Leucine (4)
Tryptophan (4)
Proline (4)
Nicotinamide (4)
NAD+ (4)
Lysine (4)
Hypoxanthine (4)
Glutamate (4)
Gamma-aminobutyric acid (4)
Arginine (4)
Methionine (4)
Valine (4)
L-alanine (4)
Uracil (4)
Glycerol (4)
Beta-alanine (4)
Valine (4)
L-glutamine (4)
ADP (4)

First Public Date

2025 (84)
2026 (71)
2024 (63)
2023 (54)
2022 (48)
2020 (39)
2014 (34)
2021 (31)
2019 (22)
2018 (19)
2017 (18)
2015 (13)
2016 (3)
2013 (3)

Modelling Approach

Constraint-based model (3)
Ordinary differential equation model (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 Biochemistry II, Faculty of Medicine, Goethe University, Theodor-Stern-Kai 7, D-60590 Frankfurt am Main, Germany (2)
Proteomics core facility, Biomedical Research Institute, Seoul National University Hospital (2)
University of Bristol, School of Biochemistry (2)
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)
Adele Niessen Professor of Ophthalmology Vice Chair for Research FM Kirby Center for Molecular Ophthalmology Scheie Eye Institute University of Pennsylvania (1)
Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (1)
Baxter Laboratory for Stem Cell Biology Department of Microbiology & Immunology Stanford University School of Medicine 269 Campus Drive CCSR 3205b Stanford, CA 94305-5175 (1)
Bioanalytical Mass Spectrometry Group, Max-Planck-Institute for Biophysical Chemistry Department of Clinical Chemistry, University Medical Center Goettingen (1)
Bioanalytical Mass Spectrometry Group,Max-Planck-Institute for Multidisciplinary Sciences,Goettingen, Germany (1)
Biomedical Research Center, University Hospital Hradec Kralove, Czech Republic (1)
Cambridge Institute for Medical Research, University of Cambridge, UK (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 of Biochemistry, Vanderbilt University, USA (1)
Department of Biology, University of Fribourg Chemin du Musée 10, 1700 Fribourg, Switzerland T +41 26 300 8631 (1)
Department of Biomedical engineering, Lerner Research Institute, Cleveland Clinic (1)
Department of Cell Biology, Zhejiang University School of Medicine, Hangzhou, Zhejiang, China (1)
Department of Chemistry, Imperial College London (1)
Department of Genome Integrity, Institute of Molecular Genetics of the Czech Academy of Sciences, Prague, Czech Republic (1)
Department of Medical Oncology, University of Groningen, University Medical Center Groningen, Groningen, The Netherlands. (1)
Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. (1)
Department of Molecular Cell Biology, Institute for Cancer Research, The Norwegian Radium Hospital, Oslo University Hospital, Montebello, 0379 Oslo, Norway (1)
Department of Molecular Machines and Signaling, Max Planck Institute of Biochemistry, Martinsried 82152, Germany (1)
Department of Ophthalmology, Johns Hopkins University School of Medicine (1)
Department of Pathology, Johns Hopkins Medical School, USA (1)
Department of Pediatrics and Genetics, Stanford University, Stanford, CA 94305, USA (1)

IsPrivate

False (4)

Submitter Keywords

FROG (1)

Classification

bacteria (1)

Modification

4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (4254)
RNA-seq of coding RNA (846)
ChIP-seq (529)
RNA-seq of coding RNA from single cells (208)
ChIP-chip by tiling array (172)
Unknown experiment type (165)
Other (144)
RNA-seq of non coding RNA (116)
Comparative genomic hybridization by array (115)
ChIP-chip by array (113)
Methylation profiling by array (98)
Methylation profiling by high throughput sequencing (80)
Transcription profiling by tiling array (73)
RNA-seq of total RNA (51)
MicroRNA profiling by array (47)
Transcription profiling by RT-PCR (44)
Cell line - High-throughput sequencing (38)
DNA-seq (35)
ATAC-seq (25)
Genotyping by array (22)
High-throughput sequencing (21)
Proteomic profiling by array (19)
Animal - High-throughput sequencing (18)
CLIP-seq (15)
Spatial transcriptomics by high-throughput sequencing (14)
CUT&RUN (14)
Human - High-throughput sequencing (13)
RNAi profiling by array (12)
MicroRNA profiling by high throughput sequencing (12)
Ribo-seq (12)

Release Date

2010 (1088)
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2018 (182)
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2005 (125)
2006 (101)
2004 (59)
2003 (11)
2002 (6)
2001 (1)
1996 (1)

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Identification of miRNA signatures during the differentiation of hESCs into retinal pigment epithelial cells

Retinal pigment epithelium (RPE) cells can be obtained through in vitro differentiation of both embryonic stem cell (ESC) and induced pluripotent stem cells (iPSC) for cell replacement therapy. We have previously identified 87 signature genes relevant to RPE cell differentiation and function through...

ORGANISM(S): Homo sapiens

2012-08-01 | E-GEOD-37686 | biostudies-arrayexpress

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

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

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

RPE Redifferentiation (miRNA)

ORGANISM(S): Homo sapiens

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

Integrated analysis of DNA methylation and RNA transcriptome during the differentiation of human pluripotent stem cells into retinal pigment epithelial cells

Using the paradigm of in vitro differentiation of hESCs/iPSCs into retinal pigment epithelial (RPE) cells, we have recently profiled mRNA and miRNA transcriptomes to define a set of RPE mRNA and miRNA signature genes implicated in directed RPE differentiation. In this study, in order to understand t...

ORGANISM(S): Homo sapiens

2014-05-28 | E-GEOD-43473 | biostudies-arrayexpress

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

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

Comparison of native versus cultured RPE cells

Description I. Exp Design 1. Type of experiment: Comparison of native versus cultured RPE cells 2. Experimental factors: Native RPE versus ARPE-19 cells grown in different culture conditions 3. How many hybridizations in exp: 20 4. If a common reference used for all the hybs: no 5. Quality control s...

ORGANISM(S): Homo sapiens

2010-06-05 | E-GEOD-1836 | biostudies-arrayexpress

Global gene expression analysis of human iPSC-derived Retinal Pigmented Epithelial (RPE) cells from LCA patients and unaffected persons

Our purpose was to investigate genes and molecular mechanisms involved in patients with Leber congenital amaurosis (LCA). Fibroblasts from two unrelated clinically-identified patients (Coriell) were reprogrammed to pluripotency by retroviral transduction. These human induced Pluripotent Stem Cells (...

ORGANISM(S): Homo sapiens

2015-01-21 | E-GEOD-43926 | biostudies-arrayexpress

Chemokine expression in retinal pigment epithelial cells in response to co-culture with activated T Cells

Purpose: To investigate the effects of T cell-derived cytokines on gene and protein expression of chemokines in a human RPE cell line (ARPE-19). Methods: We used an in vitro co-culture system in which the RPE and CD3/28-activated T cells were separated by a membrane. Differential gene expression in...

ORGANISM(S): Homo sapiens

2012-11-19 | E-GEOD-36331 | biostudies-arrayexpress

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