Collagens - OmicsDI

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Unknown (1378)
Transcriptomics (864)
Proteomics (199)
Genomics (193)
Other (11)
Metabolomics (6)
Methylation profiling (1)

Organisms

Homo sapiens (482)
Mus musculus (306)
Rattus norvegicus (69)
Caenorhabditis elegans (13)
Gallus gallus (10)
Sus scrofa (9)
Bos taurus (8)
Danio rerio (7)
Equus caballus (4)
Spodoptera frugiperda (3)
Canis lupus familiaris (3)
Brugia malayi (3)
Oryctolagus cuniculus (3)
Callithrix jacchus (2)
Brugia pahangi (2)
synthetic construct (2)
Salmo salar (2)
Ovis aries (2)
Pseudomonas aeruginosa (2)
Meleagris gallopavo (1)
Taeniopygia guttata (1)
Oryzias latipes (1)
Mus musculus domesticus (1)
unidentified (1)
Xenopus laevis (1)
Streptococcus dysgalactiae subsp. dysgalactiae (1)
Anopheles gambiae (1)
Cricetulus griseus (1)
Oncorhynchus mykiss (1)
Anas platyrhynchos (1)

Organisms

Homo sapiens (67)
Mus musculus (54)
Caenorhabditis elegans (5)
Danio rerio (3)
Ambystoma mexicanum (2)
Sus scrofa (2)
Rattus norvegicus (2)
Brugia malayi (1)
Takifugu rubripes (1)
Macaca fascicularis (1)
Ancylostoma caninum (1)
Equus caballus (1)
Salmo salar (1)
Pseudomonas aeruginosa (1)
Bos taurus (1)

Repository

biostudies-arrayexpress (754)
ENA (158)
geo (145)
pride (101)
MassIVE (63)
jPOST (15)
iProX (12)
EGA (11)
MetaboLights (6)
GPMDB (4)
PanoramaPublic (3)
PAXDB (3)
EVA (1)

Tissue

Cell culture (16)
Fibroblast (9)
Bone (8)
Heart (6)
Skin (6)
Breast (5)
Tendon (5)
Tooth (4)
Cornea (3)
Epithelial cell (3)
Brain (2)
Dendritic cell (2)
Early embryonic cell (2)
Intervertebral disc (2)
Keratinocyte (2)
Kidney (2)
Pancreas (2)
Skeletal muscle (2)
Stem cell (2)
Urine (2)
Adrenal cortex (1)
Adrenal gland (1)
Aorta (1)
Aorta thoracica (1)
Artery (1)
Biceps femoris (1)
Bone cell (1)
Bone matrix (1)
Colon (1)
Dental pulp cell (1)

Disease

Not Available (4)
Normal (3)
Disease free (2)
Injured (1)
Diabetes mellitus type 1 (1)
ER positive breast cancer (1)
Limited cutaneous subset (1)
Normal (control treated) (1)
Obesity (1)
Normal (untreated) (1)
Glioblastoma (1)
Control (1)
Abnormality of prenatal development or birth (1)
Alport syndrome (1)
Aortic valve stenosis (1)
Atherosclerosis (1)
Breast cancer (1)
Chronic kidney disease (1)
Colon cancer (1)
Connective tissue disease (1)
Duchenne muscular dystrophy (1)
Osteosarcoma (1)
Pancreatic ductal adenocarcinoma (1)
Prostate adenocarcinoma (1)
Recessive dystrophic epidermolysis bullosa (1)
Ureteral obstruction (1)
Vulva squamous cell carcinoma (1)
Wounds and Injuries (1)

Technology Type

Mass Spectrometry (101)
Shotgun proteomics (60)
Bottom-up proteomics (26)
Data-dependent acquisition (18)
Mass spectrometry (6)
Data-independent acquisition (6)
Gel-based experiment (6)
Top-down proteomics (4)
SWATH MS (3)
ILLUMINA, Illumina HiSeq 2500 (1)
Illumina HiSeq 2000, Illumina Genome Analyzer II (1)
Illumina HiSeq 2000 (1)
Affinity purification coupled with mass spectrometry proteomics (1)
DiaPASEF (1)
Mass spectrometry imaging (1)
SRM/MRM (1)

Instrument Platform

Illumina HiSeq 2500 (30)
Illumina HiSeq 4000 (25)
Illumina NovaSeq 6000 (24)
NextSeq 500 (13)
Illumina HiSeq 2000 (6)
Illumina NovaSeq X (5)
NextSeq 2000 (4)
DNBSEQ-G400 (4)
N/A (2)
Illumina HiSeq 3000 (2)
AB 5500xl Genetic Analyzer (2)
NEXTflex Small-RNA Seq kit v3 (Perkin Elmer) & NEXTflex Rapid XP DNA-seq kit v2 (Perkin Elmer) (1)
Direct-zol RNA microprep kit (Zymo Research), LabChip RNA pico sensitivity assay, Perkin Elmer & Nucleospin RNA kit (Macherey Nagel) (1)
PALM type 4 microscope (Zeiss) (1)
CeMM HPC (1)
Illumina Dragen RNAseq pipeline (1)
Chromium™ Next GEM Single Cell 3′ Kit v3.1 (10X Genomics, PN-1000269) (1)
10x Chromium (1)
HiSeq 1500 (1)
Agilent Microarray Scanner G2505c (1)
BDRhapsody (1)
Agilent High resolution C scanner (1)
Agilent® 2100 Bioanalyzer Instrument (1)
None (1)
QuantStudioTM 12K Flex system (1)
Agilent G2565BA scanner (1)
Agilent Hybridization Oven (1)
Affymetix Gene Titan (1)
Affymetrix Gene Titan (1)
Agilent 2100 Bioanalyser, RNA 6000 Nano Kit chips (Agilent Technologies). NanoDrop® ND-1000 (Saveen&Werner). (1)

Publication Date

2015 (94)
2013 (82)
2010 (80)
2012 (79)
2025 (74)
2014 (74)
2016 (73)
2023 (58)
2009 (52)
2008 (52)
2022 (51)
2011 (48)
2024 (42)
2020 (39)
2026 (38)
2021 (37)
2019 (35)
2018 (34)
2007 (22)
2017 (21)
2006 (2)
2005 (1)
2003 (1)

UNIPROT ID/AC

1433B_MOUSE (3)
1433E_MOUSE (3)
1433F_MOUSE (3)
1433G_MOUSE (3)
1433S_MOUSE (3)
1433T_MOUSE (3)
1433Z_MOUSE (3)
2A5A_MOUSE (3)
2AAA_MOUSE (3)
2AAB_MOUSE (3)
2ABA_MOUSE (3)
3HIDH_MOUSE (3)
4F2_MOUSE (3)
5NTD_MOUSE (3)
6PGD_MOUSE (3)
6PGL_MOUSE (3)
A1AG1_MOUSE (3)
A1AT1_MOUSE (3)
A1AT2_MOUSE (3)
A1AT4_MOUSE (3)
A2AP_MOUSE (3)
AACS_MOUSE (3)
AAKG1_MOUSE (3)
AATC_MOUSE (3)
AATM_MOUSE (3)
ABCD3_MOUSE (3)
ABCE1_MOUSE (3)
ABCF1_MOUSE (3)
ABCF2_MOUSE (3)
ABEC2_MOUSE (3)

CHEBI ID

CHEBI:16938 (2)
CHEBI:18009 (2)
CHEBI:17713 (2)
CHEBI:32797 (2)
CHEBI:15713 (2)
CHEBI:16264 (2)
CHEBI:17659 (2)
CHEBI:15721 (2)
CHEBI:17287 (2)
CHEBI:15846 (2)
CHEBI:17202 (2)
CHEBI:16856 (2)
CHEBI:15978 (2)
CHEBI:4170 (2)
CHEBI:16238 (2)
CHEBI:48153 (2)
CHEBI:17677 (2)
CHEBI:15346 (2)
CHEBI:17239 (2)
CHEBI:18406 (2)
CHEBI:48928 (2)
CHEBI:17050 (2)
CHEBI:16732 (2)
CHEBI:15676 (2)
CHEBI:17533 (2)
CHEBI:16708 (2)
CHEBI:17755 (2)
CHEBI:27470 (2)
CHEBI:16283 (2)
CHEBI:17361 (2)

Metabolite Name

DAMP (3)
Kynurenic acid (3)
Cystine (3)
Creatinine (3)
Cholesteryl sulfate (2)
GTP (2)
NADP+ (2)
Taurodeoxycholic acid (2)
UTP (2)
UDP (2)
NAD+ (2)
IMP (2)
FAD (2)
CTP (2)
ATP (2)
AMP (2)
Uracil (2)
Valine (2)
N6-Acetyl-L-lysine (2)
CMP (2)
CDP (2)
2-Hydroxybutyric acid (2)
4-Pyridoxic acid (2)
CDP-ethanolamine (2)
DCMP (2)
ADP (2)
NADPH (2)
GMP (2)
Xanthurenic acid (2)
Kynurenine (2)

First Public Date

2025 (29)
2014 (22)
2026 (18)
2023 (18)
2022 (14)
2024 (11)
2020 (10)
2019 (10)
2021 (9)
2018 (7)
2015 (5)
2017 (3)
2016 (1)
2013 (1)

Classification

helminths (1)
bacteria (1)

Modification

4x(15)N labeled L-arginine (2)
2x(15)N labeled L-lysine (1)
4x(2)H labeled dimethylated L-lysine (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (537)
RNA-seq of coding RNA (102)
RNA-seq of coding RNA from single cells (21)
ChIP-seq (12)
Methylation profiling by array (12)
Cell line - High-throughput sequencing (7)
RNA-seq of total RNA (7)
RNA-seq of non coding RNA (7)
Transcription profiling by RT-PCR (5)
Unknown experiment type (4)
Animal - High-throughput sequencing (4)
Other (4)
MicroRNA profiling by array (4)
Animal - One-color microarray (3)
Comparative genomic hybridization by array (3)
Methylation profiling by high throughput sequencing (3)
Transcription profiling by SAGE (2)
ChIP-chip by tiling array (2)
Spatial transcriptomics by high-throughput sequencing (2)
Bisulfite-seq (2)
DNA-seq (2)
MeDIP-seq (1)
Human - Single-cell sequencing (1)
Human - High-throughput sequencing (1)
RNAi profiling by array (1)
MicroRNA profiling by high throughput sequencing (1)
Single nucleus RNA sequencing (1)
Proteomic profiling by array (1)

Release Date

2023 (164)
2021 (160)
2022 (158)
2015 (134)
2016 (124)
2020 (120)
2013 (120)
2012 (115)
2025 (114)
2014 (110)
2010 (105)
2019 (102)
2018 (97)
2024 (95)
2011 (89)
2017 (80)
2008 (75)
2009 (66)
2007 (28)
2026 (25)
2006 (12)
2003 (9)
2005 (6)
2002 (6)
2004 (4)
2000 (4)
1998 (3)
2001 (2)
1997 (2)
1999 (1)

Lab affiliation

Manchester Academic Health Science Centre, Division of Cell Matrix Biology & Regenerative Medicine, School of Biological Sciences, Faculty of Biology, Medicine and Health, Manchester, UK (3)
Debora Bonenfant, Novartis Institutes for BioMedical Research, Basel, Switzerland (2)
Washington State University (2)
1) Department Preclinical Development and Validation, Fraunhofer Institute for Cell Therapy and Immunology IZI, Leipzig, Germany; 2) Institute for Bioanalysis, University of Applied Science Coburg, Coburg, Germany (1)
Assistant Professor, Division of Reproductive Sciences Dept. of Obstetrics, Gynecology and Reproductive Sciences University of Vermont College of Medicine 89 Beaumont Avenue, Burlington, VT 05405 USA (1)
BioGipuzkoa Health Research Institute, Stem Cells & Aging Group, Donostia-San Sebastián, 20014, Spain; Donostia University Hospital, Advanced Therapies Unit, Donostia-San Sebastián, 20014, Spain. (1)
Cedars-Sinai Medical Center, Heart Institute, Los Angeles, CA. United States of America (1)
Cell Biology Unit, de Duve Institute, UCLouvain, 1200 Brussels, Belgium (1)
Center for Neuroscience and Cell Biology – University of Coimbra (1)
Center of Regenerative Medicine in Barcelona (CMRB) (1)
Center of Regenerative Medicine in Barcelona (CMRB) 3rd Floor Hospital Duran i Reynals Avinguda de la Gran Via, 199-203 08908 Hospitalet de Llobregat (Barcelona), Spain (1)
Central South University (1)
Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr Aiguader 88, Barcelona 08003, Spain; Universitat Pompeu Fabra (UPF), Barcelona, Spain; ICREA, Pg. Lluis Companys 23, Barcelona 08010, Spain (1)
Centre for Oral, Clinical and Translational Science, King's College London, London, United Kingdom (1)
Dep. of Biology, University of Fribourg, Switzerland (1)
Department of Biochemistry University of Turku Turku, FINLAND (1)
Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado, Aurora, CO, USA (1)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA (1)
Department of Biochemistry, Albert Einstein College of Medicine, The Bronx, NY 10461, United States (1)
Department of Biosciences, Durham University, UK (1)
Department of Cell and Molecular Biology, College of Medicine, Chang Gung University, Taoyuan, Taiwan (1)
Department of Geosciences, Princeton University, Princeton, USA, 09544 (1)
Department of Life Technologies, University of Turku, Turku, Finland (1)
Department of Molecular Biology and Genetics Aarhus Univerity Denmark (1)
Department of Musculoskeletal Biology Institute of Ageing and Chronic Disease University of Liverpool (1)
Department of Pathology, University of Arkansas for Medical Sciences, Little Rock, AR, USA (1)
Department of Physiology and Biophysics, University of Illinois Chicago (1)
Department of Physiology and Biophysics, University of Illinois at Chicago (1)
Department of Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Martinsried, Germany (1)
Department of Translational Medicine and Physiology, Washington State University, Spokane, WA, USA (1)

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Functional impact of collagens on the activity directed by the promoter of the a5 integrin subunit gene in corneal epithelial cells

Important remodeling of the extracellular matrix is a hallmark of corneal wound healing. Besides the massive secretion of fibronectin (FN) that characterizes the early step of that process, alterations in the secretion of collagens also occurs as part of this wound healingresponse. In this study, we...

ORGANISM(S): Homo sapiens

2015-01-30 | E-GEOD-65421 | biostudies-arrayexpress

Basement membrane collagens and disease mechanisms.

Not available

S-EPMC6744580 | biostudies-literature

Discovery of mammalian collagens I and III within ancient poriferan biopolymer 2 spongin

Discovery of mammalian collagens I and III 1 within ancient poriferan biopolymer 2 spongin

ORGANISM(S): Sponges (porifera)

2025-02-14 | MSV000097124 | MassIVE

Collagens.

Not available

S-EPMC2997103 | biostudies-literature