Extra-cellular matrix

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Transcriptomics (507)
Unknown (278)
Genomics (82)
Proteomics (36)
Metabolomics (3)
Models (1)

Organisms

Homo sapiens (228)
Mus musculus (117)
Rattus norvegicus (32)
Drosophila melanogaster (17)
Danio rerio (12)
Sus scrofa (9)
Bos taurus (8)
Mycobacterium tuberculosis (5)
Caenorhabditis elegans (5)
Saccharomyces cerevisiae (5)
Pimephales promelas (4)
Oncorhynchus mykiss (4)
Arabidopsis thaliana (4)
Amphimedon queenslandica (3)
Pinctada maxima (2)
Oncorhynchus nerka (2)
Solea senegalensis (2)
Bos indicus (2)
Daphnia magna (2)
Xenopus laevis (2)
Emiliania huxleyi (2)
Salmo salar (2)
Escherichia coli (2)
Sinorhizobium meliloti (2)
Gallus gallus (2)
Cloeon dipterum (1)
Tai Forest ebolavirus (1)
Haloferax volcanii DS2 (1)
Hypsibius dujardini (1)
Schmidtea polychroa (1)

Organisms

Homo sapiens (27)
Mus musculus (21)
Rattus norvegicus (4)
Thalassiosira pseudonana CCMP1335 (1)
Tupaia belangeri chinensis (1)
Dictyostelium discoideum (1)
Equus caballus (1)
Canis lupus familiaris (1)
Sus scrofa (1)
Danio rerio (1)

Repository

biostudies-arrayexpress (460)
ENA (68)
geo (60)
pride (34)
MetaboLights (3)
BioModels (1)
EGA (1)
MassIVE (1)
PeptideAtlas (1)

Tissue

Cell culture (13)
Epithelial cell (4)
Fibroblast (3)
Lung (3)
Lymph node (2)
Notochordal cell (2)
Nucleus pulposus (2)
Tail (2)
Urine (1)
Blood serum (1)
Brain (1)
Breast (1)
Cartilage tissue (1)
Chondrocyte (1)
Cranium (1)
Dental pulp cell (1)
Early embryonic cell (1)
Fat cell (1)
Fibroblast of lung (1)
Lumbar spine (1)
Malignant cell (1)
Muscle (1)
Osteoblast (1)
Osteocyte (1)
Ovary (1)
Pancreatic duct (1)
Pancreatic ductal adenocarcinoma cell line (1)
Pancreatic ductal cell (1)
Pancreatic stellate cell (1)
Prostate stromal cell (1)

Disease

Breast cancer (6)
Normal (3)
Neuroblastoma (3)
Degenerative disc disease (2)
Septic peritonitis (1)
Multibacillary (1)
Asthma (1)
Keratoconus (1)
Diffuse large B-cell lymphoma (1)
Pneumococcal meningitis (1)
TAC operated 5 hours after surgery (1)
Marsh 3 (1)
Dukes D primary colon cancer (1)
Colon cancer metastasis (1)
Rheumatoid arthritis (1)
Short stature-onychodysplasia-facial dysmorphism-hypotrichosis syndrome (1)
SS2-infected (1)
Benign adenoma (1)
Glioblastoma (1)
Prostate carcinoma (1)
Bone disease (1)
Osteoarthritis (1)
Osteosarcoma (1)
Pancreas adenocarcinoma (1)
Pancreatic ductal carcinoma (1)
Prostate adenocarcinoma (1)

Technology Type

Mass Spectrometry (34)
Shotgun proteomics (22)
Gel-based experiment (3)
SWATH MS (3)
Mass spectrometry (2)
Bottom-up proteomics (2)
Mass spectrometry assay (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Data-dependent acquisition (1)
Data-independent acquisition (1)
HDMSE (1)
Mass spectrometry imaging (1)

Instrument Platform

NextSeq 500 (16)
Illumina NovaSeq 6000 (14)
Illumina HiSeq 4000 (8)
Illumina HiSeq 2500 (5)
Illumina HiSeq 2000 (4)
10X (2)
Octo MACS (2)
Nanodrop N1000 spectrophotometer (2)
Q Exactive (2)
Liquid Chromatography MS - negative - hilic (2)
Liquid Chromatography MS - positive - hilic (2)
BD Rhapsody Express Instrument (1)
Nanostring GeoMx® spatial profiler (1)
Octo MACS Dissociator (1)
10x Chromium Controller (1)
Microcentrifuge (1)
Affymetrix GeneChip Scanner 3000 7G (1)
GeneChip Scanner 3000 [Affymetrix] (1)
GenePix 4000A [Axon Instruments] (1)
G2565BA DNA microarray scanner [Agilent] (1)
- (1)
NextSeq 2000 (1)
Illumina MiSeq (1)
Illumina HiSeq 1500 (1)
NextSeq 550 (1)
Illumina HiSeq 3000 (1)
LTQ (1)

Publication Date

2010 (82)
2013 (57)
2015 (46)
2014 (42)
2016 (38)
2012 (38)
2011 (34)
2008 (27)
2021 (24)
2024 (22)
2022 (22)
2009 (22)
2007 (18)
2023 (17)
2005 (15)
2020 (13)
2019 (9)
2017 (9)
2006 (9)
2026 (5)
2018 (5)
2025 (5)
2004 (1)

UNIPROT ID/AC

A0A024RAN2 (1)
A0A075B6P5 (1)
A0A087WT59 (1)
A0A087WTX5 (1)
A0A087WVW2 (1)
A0A087WWA5 (1)
A0A087WXI0 (1)
A0A087WYL9 (1)
A0A087X130 (1)
A0A087X1V9 (1)
A0A087X232 (1)
A0A0A0MS07 (1)
A0A0A0MS51 (1)
A0A0B4J1V0 (1)
A0A5B9 (1)
A0M8Q6 (1)
A0N5G4 (1)
A0N5G5 (1)
A0N7I9 (1)
A0N7J6 (1)
A1L4H1 (1)
A2BFH1 (1)
A2IPH7 (1)
A2IPI2 (1)
A2IPI4 (1)
A2IPI5 (1)
A2IPI6 (1)
A2J422 (1)
A2J423 (1)
A2JA16 (1)

ENSEMBL ID

ENSG00000170477 (1)
ENSG00000229353 (1)

CHEBI ID

CHEBI:15676 (2)
CHEBI:17515 (2)
CHEBI:15428 (2)
CHEBI:17154 (2)
CHEBI:16235 (2)
CHEBI:17750 (2)
CHEBI:15891 (2)
CHEBI:57600 (1)
CHEBI:58336 (1)
CHEBI:597326 (1)
CHEBI:58069 (1)
CHEBI:13711 (1)
CHEBI:57865 (1)
CHEBI:60377 (1)
CHEBI:456215 (1)
CHEBI:74767 (1)
CHEBI:76942 (1)
CHEBI:134206 (1)
CHEBI:58231 (1)
CHEBI:57483 (1)
CHEBI:57567 (1)
CHEBI:73051 (1)
CHEBI:142440 (1)
CHEBI:35766 (1)
CHEBI:84814 (1)
CHEBI:21054 (1)
CHEBI:143269 (1)
CHEBI:73028 (1)
CHEBI:1606 (1)
CHEBI:17737 (1)

Metabolite Name

Adenosine (2)
L-Phenylalanine (2)
Phenytoin Quinone (1)
4,5-Diphenylimidazole (1)
25-Hydroxyvitamin D2-25-Glucuronide (1)
Ms-275 (1)
Diguanosine Triphosphate (1)
Dihydronicotinamide Formycin Dinucleotide (1)
1,2-Ethanediol Monoricinoleate (1)
Benzoyl-Dl-Arginine-Naphthylamide (1)
7-(3,4-Diethoxyphenyl)-3-[(4-Fluorophenyl)Methyl]Thieno[3,2-D]Pyrimidin-4-One (1)
Mppa (Methyl Pyropheophorbide-A) (1)
3-Phenyl-1-Propanol (1)
(10R,13S,17S)-17-Hydroxy-13-Methyl-10-[(4-Methylphenyl)Methyl]-17-Prop-1-Ynyl-2,6,7,8,12,14,15,16-Octahydro-1H-Cyclopenta[A]Phenanthren-3-One (1)
Pc(16:1(9Z)/24:1(15Z)) (1)
Pa(20:5(5Z,8Z,11Z,14Z,16E)-Oh(18R)/18:3(6Z,9Z,12Z)) (1)
(8R,9R,10S,13R,14S)-1,2,3,4,5,6,7,8,9,10,11,12,14,15,16,17-Hexadecahydrocyclopenta[A]Phenanthrene-13-Carbaldehyde (1)
Echinocystic Acid (1)
Ps(15:0/15:0) (1)
Decapropylene Glycol (1)
Pe(14:1(9Z)/14:1(9Z)) (1)
Lysopc(22:2(13Z,16Z)/0:0) (1)
1-(2,4-Dimethylphenyl)-3-[(3-Morpholin-4-Yloxolan-3-Yl)Methyl]Urea (1)
Ps(15:0/18:4(6Z,9Z,12Z,15Z)) (1)
Ppg N11 (1)
Dg(A-17:0/Lte4/0:0) (1)
N-[1-(2-Ethylphenyl)Sulfonylpiperidin-4-Yl]-2-Methoxy-N-(Oxan-4-Yl)Acetamide (1)
N-Methyl-2-(4-Methylphenyl)Sulfonyl-2-Azaspiro[4.4]Nonane-4-Carboxamide (1)
Octaethyleneglycol Monododecyl Ether (1)
Ps(18:0/18:3(6Z,9Z,12Z)) (1)

First Public Date

2014 (18)
2024 (13)
2020 (9)
2021 (7)
2022 (5)
2026 (3)
2017 (3)
2016 (3)
2015 (3)
2025 (2)
2023 (1)
2019 (1)

Modelling Approach

Ordinary differential equation model (1)

Lab affiliation

Virginia Tech, Biological Sciences (3)
Research Scientist, Ganga Orthopedic Research and Education Foundation, 187, Mettupalayam Road, Kavundampalayam, Coimbatore- 641030, Tamil Nadu, India (2)
Weizmann Institute of Science (2)
Cell Signalling & Proteomics Group, Barts Cancer Institue, Queen Mary University of London, London, UK (1)
Cellzome (1)
Core Facility Proteomics, Department of Clinical Chemistry, University Medical Center Goettingen, Germany (1)
Department of Biological Regulation, Weizmann Institute, Rehovot, Israel. (1)
Department of Biophysics All India Institute of Medical Sciences New Delhi 110029 India (1)
Department of Chemistry, Oregon State University, US (1)
Department of Medical Protein Research, VIB & Department of Biochemistry, UGent, Ghent, Belgium (1)
Dept. of Biology University of Fribourg Chemin du Musee 10 CH-1700 Fribourg Switzerland (1)
Head of the Curie Institute Mass Spectrometry platform (LSMP) (1)
Head of the Necker Proteomics Plataform Paris France (1)
Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, Université Toulouse III - Paul Sabatier (UT3), Toulouse, France Infrastructure Nationale de Protéomique, ProFI, FR 2048, Toulouse, France (1)
Institute of Physiology II Universität Freiburg Germany (1)
Istituto G. Gaslini (1)
Keck MS & Proteomics Resource Yale School of Medicine (1)
Laboratory of Lymphoid Organ Development Division of Experimental Oncology San raffaele Scientific Institute Via Olgettina, 60 20132 Milan (Italy) (1)
Lund University, Immunotechnology, LTH (1)
Proteomics, Leibniz-Institut für analytische Wissenschaften -ISAS - e.V., Germany (1)
Protim, Inserm U1085, Irset Campus de Beaulieu 35042 Rennes Cedex, France (1)
Research Fellow Future Industries Institute | University of South Australia ipc MLK-40 | p GPO Box 2471 Adelaide SA 5001 (1)
SJTU-Yale Joint Center for Biostatistics, School of Life Sciences and Biotechnology Shanghai Jiao Tong University (1)
Senior Lecturer Department of Infection Biology and Microbiomes, Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, (1)
Target Discovery Institute (TDI) Mass Spectrometry Laboratory, Nuffield Department of Medicine, Oxford, OX3 7FZ UK (1)
The Laboratory of Craniofacial Development and Biology, Section of Plastic and Reconstructive Surgery, University of Chicago Medicine (1)
UCLouvain Institut de Recherche Expérimentale et Clinique Pôle de Recherche en Gynécologie Avenue Mounier, 52 Bte. B1.52.02 1200 Bruxelles, Belgique (1)
University Medical Center Goettingen, Institute of Clinical Chemistry (1)
University of Picardie Jules Verne (1)
aDepartment of Structural Biology, Weizmann Institute of Science, Rehovot, Israel. (1)

IsPrivate

False (1)

Classification

protozoa (1)

Study type

Transcription profiling by array (286)
RNA-seq of coding RNA (61)
Comparative genomic hybridization by array (21)
RNA-seq of coding RNA from single cells (17)
Unknown experiment type (16)
Transcription profiling by tiling array (10)
ChIP-seq (7)
Other (6)
Methylation profiling by array (6)
Animal - High-throughput sequencing (4)
Genotyping by array (4)
Animal - One-color microarray (3)
DNA-seq (3)
RNA-seq of non coding RNA (3)
RNA-seq of total RNA (2)
Transcription profiling by SAGE (1)
Baseline (1)
ChIP-chip by tiling array (1)
Human - Single-cell sequencing (1)
Whole chromosome random sequencing (1)
Cell line - High-throughput sequencing (1)
RNAi profiling by array (1)
Spatial transcriptomics by high-throughput sequencing (1)
Bisulfite-seq (1)
ATAC-seq (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2010 (85)
2013 (61)
2015 (60)
2014 (51)
2016 (47)
2012 (44)
2021 (42)
2020 (41)
2011 (39)
2023 (35)
2022 (34)
2008 (29)
2019 (27)
2017 (27)
2024 (23)
2009 (21)
2007 (18)
2018 (17)
2005 (15)
2025 (10)
2006 (7)
2026 (2)
2004 (1)
2003 (1)
2000 (1)

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Role of mTOR in regulating the extra cellular matrix

Explored the potential role of mTOR in regulating the extra cellular matrix of TGF-b1-stimulated IPF fibroblasts grown under macromolecular crowding conditions in the presence of either CZ415 or rapamycin

ORGANISM(S): Homo sapiens (Human)

2018-11-04 | PXD010164 | Pride

Effects of PRSS35 on the extra cellular matrix

In the project four sets of label-free proteomics studies were performed to characterize the extra cellular matrix (ECM) proteome of differentially treated cells (see below). All cells were treated with sorbitol to induce the expression of PRSS35. Only in set IV PRSS35 is downregulated. For each set...

ORGANISM(S): Homo sapiens (Human)

2023-07-25 | PXD040684 | Pride

Human Ecm Lc-msms Skin Fibroblast

A long-term feeder-free culture method for human pancreatic progenitors on extra cellular matrix or matrix-free polymers

PRJEB42423 | ENA

Elevated Extra-cellular Matrix Signaling in Adipose Mesothelial Cells is Linked to Insulin Resistance in Obesity

PRJNA528456 | ENA

Profiling extra cellular matrix core proteome of human fetal nucleus pulposus in search for regenerative targets

Intervertebral disc degeneration is accompanied by a loss of Extra-cellular matrix (ECM) content due to an imbalance in anabolic and catabolic pathways. Identifying ECM proteins with anabolic and/or regenerative potential could be the key to developing regenerative therapies. Since human fetal discs...

ORGANISM(S): Homo sapiens (Human)

2025-01-07 | PXD021431 | Pride

Np Esi-lc-ms/ms Adult Human Fetus Regenerative potential. Ivd Degenerated discs

Transcription profiling of human rheumatoid arthritis patients derived synovial fibroblasts - using boolean network models for extracellular matrix formation

Background ; Rheumatoid arthritis (RA) is a chronic inflammatory disease, characterized by joint destruction and perpetuated by the synovial membrane (SM). In the inflamed SM, activated synovial fibroblasts (SFB) form the major cell type promoting development and progression of the disease by an abn...

ORGANISM(S): Homo sapiens

2009-08-07 | E-GEOD-13837 | biostudies-arrayexpress

ALMS1-deficient fibroblasts over-express extra-cellular matrix components, display cell cycle delay and are resistant to apoptosis.

Not available

S-EPMC3082548 | biostudies-literature

Role of extra cellular proteins in gastric cancer progression and metastasis: an update.

Not available

S-EPMC7227337 | biostudies-literature

Compound C, a Broad Kinase Inhibitor Alters Metabolic Fingerprinting of Extra Cellular Matrix Detached Cancer Cells.

Not available

S-EPMC7947618 | biostudies-literature

Part 1: profiling extra cellular matrix core proteome of human fetal nucleus pulposus in search for regenerative targets.

Not available

S-EPMC7519061 | biostudies-literature

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