Retinas - OmicsDI

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Unknown (1847)
Genomics (720)
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Mus musculus (458)
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Organisms

Mus musculus (447)
Homo sapiens (47)
Danio rerio (40)
Rattus norvegicus (20)
Gallus gallus (13)
Canis lupus familiaris (7)
Ictidomys tridecemlineatus (4)
Petromyzon marinus (3)
Oryctolagus cuniculus (3)
Drosophila melanogaster (3)
Mus musculus musculus (2)
Macaca fascicularis (2)
Macaca mulatta (2)
Pomacea canaliculata (1)
Leucoraja erinaceus (1)
Nothobranchius furzeri (1)
unidentified (1)
Ambystoma mexicanum (1)
Callithrix jacchus (1)
Caenorhabditis elegans (1)
Sus scrofa (1)
synthetic construct (1)

Repository

ENA (669)
geo (364)
biostudies-arrayexpress (332)
pride (73)
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jPOST (1)
MetabolomicsWorkbench (1)
PeptideAtlas (1)

Tissue

Retina (58)
Retinal cell (6)
Brain (4)
Neural retina (4)
Retinal rod cell (3)
Choroid (2)
Epithelial cell (2)
Optic nerve (2)
Photoreceptor cell (2)
Retinal pigment epithelial cell (2)
Retinal pigment epithelium cell (2)
Retinal rod (2)
Sclera (2)
Retina (1)
Eye (1)
Blood plasma (1)
Cell suspension culture (1)
Extracellular vesicle (1)
Eye photoreceptor cell (1)
Ganglionic layer of retina (1)
Layer of retina (1)
Neuronal stem cell (1)
Whole body (1)

Disease

Myopia (6)
Retinal degeneration (6)
Normal (4)
Diabetes mellitus (4)
Retinitis pigmentosa (3)
Disease free (3)
Glaucoma (3)
Not Available (2)
Retinopathy of prematurity (2)
Photoreceptor degeneration (1)
Diabetic (1)
Eye disease (1)
Alzheimer's disease (1)
Congenital stationary night blindness 2A (1)
Diabetic retinopathy (1)
Parkinson's disease (1)
Primary open angle glaucoma (1)
Retinoblastoma (1)
Type 1 diabetes mellitus (1)

Technology Type

Mass Spectrometry (74)
Shotgun proteomics (35)
Bottom-up proteomics (20)
Data-dependent acquisition (14)
Gel-based experiment (6)
Data-independent acquisition (5)
SWATH MS (5)
Mass spectrometry (4)
Illumina HiSeq 2000 (3)
Mass spectrometry assay (3)
SRM/MRM (3)
Top-down proteomics (3)
Illumina HiSeq 2500 (1)
NMR spectroscopy (1)
ESI (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (9)
NextSeq 500 (9)
Illumina HiSeq 2500 (6)
Illumina HiSeq 4000 (6)
LTQ Orbitrap Elite (4)
NextSeq 2000 (3)
Illumina MiSeq (3)
Illumina HiSeq 2000 (3)
Illumina HiSeq 1000 (2)
Instrument (2)
Orbitrap Exploris 480 (2)
Orbitrap Fusion (2)
Orbitrap Fusion Lumos (2)
Q Exactive (2)
Liquid Chromatography MS - negative - hilic (2)
Liquid Chromatography MS - positive - hilic (2)
GenePix 4100A (Molecular Device) (1)
454 GS FLX (1)
BD FACSARIA III (1)
Fluidigm C1 (1)
NextSeq 550 (1)
Agilent 7890B/5977B GC MS system (1)
LTQ Orbitrap XL (1)
OrbiTrap Exactive Q HF (1)
OrbiTrap exactive HF (1)
Orbitrap Astral (1)
Orbitrap Q Exactive HF (1)
TimsTOF Pro (1)
Liquid chromatography MS/MS -Positive (1)
Liquid chromatography MS/MS - Negative (1)

Publication Date

2025 (74)
2023 (57)
2021 (56)
2014 (55)
2024 (54)
2022 (50)
2010 (50)
2013 (42)
2015 (40)
2026 (40)
2011 (37)
2008 (37)
2012 (35)
2016 (32)
2019 (28)
2020 (25)
2017 (24)
2009 (22)
2018 (20)
2004 (13)
2007 (11)
2005 (6)
2006 (3)
2001 (1)

UNIPROT ID/AC

1433B_HUMAN (2)
1433E_HUMAN (2)
1433F_HUMAN (2)
1433G_HUMAN (2)
1433S_HUMAN (2)
1433T_HUMAN (2)
1433Z_HUMAN (2)
6PGD_HUMAN (2)
6PGL_HUMAN (2)
9606.ENSP00000322421 (2)
9606.ENSP00000347168 (2)
9606.ENSP00000348924 (2)
9606.ENSP00000352119 (2)
9606.ENSP00000352627 (2)
9606.ENSP00000356391 (2)
9606.ENSP00000366679 (2)
9606.ENSP00000366956 (2)
9606.ENSP00000366962 (2)
9606.ENSP00000366974 (2)
9606.ENSP00000367034 (2)
9606.ENSP00000382982 (2)
9606.ENSP00000415840 (2)
9606.ENSP00000417240 (2)
9606.ENSP00000421191 (2)
9606.ENSP00000443017 (2)
9606.ENSP00000445633 (2)
9606.ENSP00000450540 (2)
9606.ENSP00000462355 (2)
9606.ENSP00000462667 (2)
9606.ENSP00000464265 (2)

ENSEMBL ID

ENSG00000170477 (1)

CHEBI ID

CHEBI:16908 (2)
CHEBI:16761 (2)
CHEBI:46229 (1)
CHEBI:156118 (1)
CHEBI:183249 (1)
CHEBI:137590 (1)
CHEBI:74470 (1)
CHEBI:140951 (1)
CHEBI:140940 (1)
CHEBI:134487 (1)
CHEBI:85853 (1)
CHEBI:132579 (1)
CHEBI:72426 (1)
CHEBI:134587 (1)
CHEBI:17411 (1)
CHEBI:46905 (1)
CHEBI:65293 (1)
CHEBI:65294 (1)
CHEBI:16135 (1)
CHEBI:75555 (1)
CHEBI:6824 (1)
CHEBI:41253 (1)
CHEBI:64559 (1)
CHEBI:85851 (1)
CHEBI:65302 (1)
CHEBI:183804 (1)
CHEBI:132542 (1)
CHEBI:140946 (1)
CHEBI:64521 (1)
CHEBI:18075 (1)

Metabolite Name

ADP (2)
NADH (2)
N-nicotinoylglycine (1)
Aldehydo-N-acetyl-D-glucosamine (1)
UDP-alpha-D-glucose (1)
N-phosphocreatine (1)
O-acetyl-L-carnitine (1)
(R)-carnitine (1)
PI (40:6) (1)
PI (38:6).(16:0/22:6) (1)
PI (38:5)c (1)
PG (36:1)b.(18:0/18:1) (1)
PG (36:1)a.(18:0/18:1) (1)
PC (40:8)a.(18:2/22:6) (1)
PC (40:7)b.(18:1/22:6) (1)
PC (40:7)a.(18:1/22:6) (1)
PC (40:6).(18:0/22:6) (1)
PC (40:5)a.(18:0/22:5) (1)
PC (38:6)c.(18:2/20:4) (1)
PC (38:6)a.(16:0/22:6) (1)
PC (38:4).(18:0/20:4) (1)
PC (38:3).(18:0/20:3) (1)
PC (38:2)a.(18:0/20:2) (1)
PC (38:1).(18:0/20:1) (1)
PC (37:1).(18:0/19:1) (1)
PC (36:6).(14:0/22:6) (1)
PC (36:5)a.(16:0/20:5) (1)
PC (36:3)b.(18:1/18:2) (1)
PC (36:2)c.(18:1/18:1) (1)
PC (36:2)b.(18:0/18:2) (1)

First Public Date

2025 (102)
2014 (95)
2023 (78)
2024 (68)
2022 (64)
2026 (60)
2021 (53)
2020 (43)
2019 (36)
2017 (24)
2018 (21)
2016 (14)
2015 (7)
2013 (4)

Modification

4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (215)
RNA-seq of coding RNA (63)
ChIP-seq (7)
RNA-seq of coding RNA from single cells (7)
Unknown experiment type (5)
RNA-seq of non coding RNA (5)
Animal - High-throughput sequencing (3)
Other (3)
MicroRNA profiling by array (3)
Methylation profiling by array (3)
High-throughput sequencing (2)
ChIP-chip by array (2)
DNA-seq (2)
Methylation profiling by high throughput sequencing (2)
Transcription profiling by SAGE (1)
Cell line - Single-cell sequencing (1)
Baseline (1)
MicroRNA profiling by high-throughput sequencing (1)
Cell line - One-color microarray (1)
Comparative genomic hybridization by array (1)
ATAC-seq (1)
ScATAC-seq (1)
Proteomic profiling by array (1)
RNA-seq of total RNA (1)

Release Date

2023 (181)
2022 (178)
2021 (160)
2020 (158)
2025 (150)
2024 (142)
2019 (127)
2016 (119)
2018 (118)
2014 (115)
2015 (107)
2017 (106)
2013 (85)
2012 (75)
2010 (68)
2011 (65)
2009 (60)
2008 (56)
2007 (30)
2026 (29)
2006 (15)
2004 (12)
2005 (6)
2000 (5)
2001 (4)
2002 (3)
2003 (2)
1998 (2)
1997 (1)

Lab affiliation

Affiliated Eye Hospital of Shandong University of Traditional Chinese Medicine (7)
Boston Children's Hospital (3)
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)
Department of Ophthalmology, Beijing Key Laboratory of Restoration of Damaged Ocular Nerve, Peking University Third Hospital, Beijing, China (2)
LSUHSC Proteomics Core Facility Department of Biochemistry and Molecular Biology LSU Health Sciences Center New Orleans, LA 70112 (2)
University of Pennsylvania (2)
Washington University in St. Louis School of Medicine (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)
1Brunason Center for Translational Vision Research, Department of Ophthalmology and Visual Sciences, Gavin Herbert Eye Institute, University of California, Irvine, Irvine, CA, 92697, USA; 2Department of Physiology and Biophysics, University of California, Irvine, Irvine, CA, 92697, USA; 3Department of Chemistry, University of California, Irvine, Irvine, CA, 92697, USA; Department of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA, 92697, USA (1)
Associate Professor, Centre for Myopia Research, School of Optometry, The Hong Kong Polytechnic University, Hong Kong SAR (1)
Associate Professor, Laboratory of Experimental Optometry, Centre for Myopia Research, School of Optometry, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong (1)
Bascom Palmer Eye Institute University of Miami (1)
Cedars-Sinai Medical Center (1)
Cedars-Sinai, Neurosurgery - Pavilion, 127 S San Vicente Blvd #A6600, Los Angeles, CA, 90048 (1)
Center for Proteomics and Metabolomics; Leiden University Medical Center; 2333 ZA Leiden, The Netherlands (1)
Department Functional Proteomics Medizinisches Proteom-Center Ruhr-University Bochum Building ProDi Gesundheitscampus 4 44780 Bochum Germany (1)
Department of Biological Sciences University of Delaware Newark, DE, USA. (1)
Department of Biological Sciences, University of Illinois at Chicago (1)
Department of Biology, University of Fribourg Chemin du Musée 10, 1700 Fribourg, Switzerland (1)
Department of Biomedicine, Aarhus University, Arhus, Denmark (1)
Department of Experimental Ophthalmology, Medical Center of the Johannes Gutenberg-University Mainz, Langenbeckstr. 1, 55131 Mainz, Germany Phone: + 49 6131 17 3328 Fax: + 49 06131 4970563 (1)
Department of Ophthalmology and Visual Sciences, Case Western reserve University,Cleveland,OH,USA (1)
Department of Ophthalmology, University of California, Irvine, CA 92697 (1)
Department of Ophthalmology, Yongin Severance Hospital, Yonsei University College of Medicine, Republic of Korea (1)
Department of Ophthalmology, University of Cologne (1)
Department of Ophthalmology, Yongin Severance Hospital, Yonsei University College of Medicine, Yongin-si, Gyeonggi-do, South Korea, 16995 (1)
Department of Opthalmology, Boston Children's Hospital, Harvard Medical School (1)
Department of Pharmaceutical Sciences, School of Pharmacy and Pharmaceutical Sciences, University at Buffalo (1)
Department of Physiology & Pharmacology Oregon Health & Science University 3181 SW Sam Jackson Park Road Portland, Oregon 97239, USA (1)

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Postnatal hyperglycemia alters amino acid profile in retinas

Not available

ORGANISM(S): Mus musculus

ST002497 | MetabolomicsWorkbench

Targeted metabolomic profiling of retinas from WT and Rho-Cre/Mfn1flx/flx/Mfn2flx/flx mice

Mitochondria are dynamic organelles that undergo continuous morphological changes, yet exhibit unique, cell-type-specific structures. In rod photoreceptor cells of the retina, these structures include elongated mitochondria in the inner segments and a distinct, large, circular mitochondrion in each ...

2026-03-12 | MTBLS12512 | MetaboLights

Gene expression in mouse retinas with cone cyclic nucleotide gated channel deficiencies

The cone photoreceptor cyclic nucleotide-gated (CNG) channel is essential for central and color vision and visual acuity. Mutations in the channel subunits CNGA3 and CNGB3 are associated with achromatopsia and cone dystrophy. We investigated the gene expression profiles in mouse retina with CNG ch...

ORGANISM(S): Mus musculus

2013-07-03 | E-GEOD-40982 | biostudies-arrayexpress

Expression variation in the mouse retina

Expression analysis of multiple mouse strains across two developmental timepoints to determine both strain specific and temporal expression of genes in the mouse retina A total of 29 retinas were collected from 15 mice of each strain at similar time points during the day. Equimolar amounts of RNA is...

ORGANISM(S): Mus musculus

2012-03-15 | E-GEOD-24512 | biostudies-arrayexpress

Transcription profiling of retina from Rp1-/- knockout vs littermate mice

Mice were a mixed background between 129/SvEv and C57BL/6. Rp1 knockout mice (Rp1-/-) and wildtype littermates examined. At P7, P10, P14, P18 and P21, mice were sacrificed and retinas removed. Each RNA sample included a pool of neural retinas from 3-4 mice. Retinas were all collected at 1-2 pm.

ORGANISM(S): Mus musculus

2007-12-14 | E-GEOD-128 | biostudies-arrayexpress

miRNAseq analysis of Chrnb4-cre driven Dicer conditional knockout (Dicer CKO) whole retinas

We have shown that Chrnb4-cre; Dicerflox/flox retinas (Dicer CKO) display a cone dystrophy by postnatal day P21, independent of rod degeneration. To elucidate which miRNAs were involved in such phenotype, miRNA sequencing was performed in whole retinas of P21 and 3.5 month old control and Dicer CKO ...

ORGANISM(S): Mus musculus

2019-01-14 | E-MTAB-6132 | biostudies-arrayexpress

Mouse iPS cells-derived 3D-retinas: Vehicle control- vs. 4-hydroxytamoxifen (4-OHT)-treated 3D-retinas

Transcriptional profiling of 3D-retinas differentiated from mouse iPS cells comparing vehicle control- with 4-OHT-treated. 4-OHT is an inverse agonist of estrogen-related receptor beta (ERRÎ²), a rod-enriched transcription factor responsible for maintenance of rod photoreceptor cells and the treatme...

ORGANISM(S): Mus musculus

2016-07-05 | E-GEOD-83985 | biostudies-arrayexpress

Differential gene expression of adult rat retinas exposed to light.

We performed a microarray screening of adult rat retinas to identify genes that could show and up- or down-regulation due to exposure to light. This study was performed using ex-vivo retinas collected from adult Long Evans rats that were exposed to light (1000 Lux), or were left in dark as control. ...

ORGANISM(S): Rattus norvegicus

2011-10-29 | E-GEOD-29299 | biostudies-arrayexpress

RNAseq analysis of Chrnb4-cre driven Dicer conditional knockout (Dicer CKO) whole retinas

We have shown that Chrnb4-cre; Dicerflox/flox retinas (Dicer CKO) display a cone dystrophy by postnatal day P21, independent of rod degeneration. To elucidate which gene pathways were affected by Dicer loss, RNA sequencing was performed in whole neural retinas of P21 control and Dicer CKO mice. This...

ORGANISM(S): Mus musculus

2019-01-14 | E-MTAB-6133 | biostudies-arrayexpress

Control vs CRB2 cKO retinas at early postnatal time points

We used microarray gene profiling to study the transcriptome of retinas lacking CRB2 during late retinal development. Unexpectedly, the retinas of newborn mice lacking CRB2 showed no changes in the transcriptome during retinal development. Comparison between Control and CRB2 null retinas at differen...

ORGANISM(S): Mus musculus

2013-12-31 | E-GEOD-50845 | biostudies-arrayexpress

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