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Trends in extracellular matrix biology

MOLECULAR BIOLOGY REPORTS (2023)

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Article Biochemistry & Molecular Biology

EGFR is a pivotal player of the E2/ER beta - mediated functional properties, aggressiveness, and stemness in triple-negative breast cancer cells

Konstantina Kyriakopoulou et al.

Summary: Triple-negative breast cancer (TNBC) is characterized by aggressive behavior, limited response to chemotherapy, and lower survival rates, with its increased metastatic potential attributed to ECM remodeling, EMT activation, and overexpression of EGFR. The interplay between EGFR and ER beta in TNBC cells plays a crucial role in regulating invasion, aggressiveness, and stemness-related characteristics, highlighting EGFR as a key effector of aggressiveness and EMT in a ER beta-dependent manner.

FEBS JOURNAL (2022)

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Review Oncology

The Role of Decorin Proteoglycan in Mitophagy

Thomas Neill et al.

Summary: This review explores the role of decorin, a small leucine-rich proteoglycan, in autophagy and mitochondrial autophagy in breast cancer. Decorin interacts with cell surface receptor tyrosine kinases, VEGFR2 and MET receptor, to induce autophagy and mitophagy, respectively. Understanding the mechanisms underlying intracellular catabolism regulation provides new insights for protein therapies targeting autophagic progression.

CANCERS (2022)

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Editorial Material Oncology

Matrix Effectors and Cancer

Zoi Piperigkou et al.

CANCERS (2022)

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Review Cell Biology

The microRNA-cell surface proteoglycan axis in cancer progression

Zoi Piperigkou et al.

Summary: Proteoglycans, as a major component of the extracellular matrix, play a crucial role in cancer progression. Recent studies have shown that proteoglycans interact with microRNAs, affecting cell-cell and cell-matrix communication and thus regulating cancer cell biogenesis and expression. Understanding the regulatory mechanisms of proteoglycans is of great significance for cancer diagnosis and treatment.

AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY (2022)

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Article Biochemistry & Molecular Biology

Analysis of extracellular matrix network dynamics in cancer using the MatriNet database

Juho Kontio et al.

Summary: The extracellular matrix (ECM) plays a crucial role in tissue development and homeostasis, and its changes in the tumor microenvironment (TME) are closely associated with tumor development and metastasis. To better understand these changes, researchers have developed the MatriNet database, which allows the study of structural changes in ECM networks across 20 different tumor types. This database provides new insights and facilitates the identification of ECM targets for further experimental investigations.

MATRIX BIOLOGY (2022)

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Article Biochemistry & Molecular Biology

DAVID: a web server for functional enrichment analysis and functional annotation of gene lists (2021 update)

Brad T. Sherman et al.

Summary: DAVID, a popular bioinformatics resource system, has undergone updates in 2021, including the rebuilding of the DAVID Gene system, increasing the number of gene-term records for annotation types, adding new annotations, assigning specific subgroups, and adding a species parameter for improved user experience.

NUCLEIC ACIDS RESEARCH (2022)

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Article Biochemistry & Molecular Biology

Spatial collagen stiffening promotes collective breast cancer cell invasion by reinforcing extracellular matrix alignment

Thijs Koorman et al.

Summary: The study reveals that increased collagen bundling promotes breast cancer invasion, while advanced glycation end product crosslinking prevents collective invasion. The collective invasion of ductal breast cancer cells depends on Lysyl oxidase-like 3 produced by tumor cells.

ONCOGENE (2022)

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Review Biochemical Research Methods

Extracellular matrix dynamics: tracking in biological systems and their implications

Michael Hu et al.

Summary: The extracellular matrix (ECM) plays a crucial role in providing mechanical support and mediating biochemical interactions for cells. Understanding the dynamic changes in ECM composition and structure is essential for studying tissue homeostasis and disease progression. This review discusses the mechanisms of ECM-cell interactions, the modulation of tissue development and disease progression by ECM changes, and the implications of ECM dynamics in tissue engineering.

JOURNAL OF BIOLOGICAL ENGINEERING (2022)

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Review Biochemistry & Molecular Biology

Review article epithelial to mesenchymal transition-associated microRNAs in breast cancer

Hossein Javdani et al.

Summary: This article discusses the significant role of epithelial to mesenchymal transition (EMT) in breast cancer, as well as the functional changes of transcription factors, signaling pathways, and microRNAs that promote EMT. While there is ongoing debate about the relevance of EMT to breast cancer in vivo, the importance of EMT in cancer progression and metastasis warrants continued research and development of treatment approaches targeting EMT.

MOLECULAR BIOLOGY REPORTS (2022)

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Article Biochemistry & Molecular Biology

FunRich enables enrichment analysis of OMICs datasets

Pamali Fonseka et al.

Summary: High-throughput methods for profiling various biological systems have become routine in research laboratories worldwide. The FunRich tool enables biologists to perform functional enrichment analysis on generated datasets with customizable visualizations. It allows users to update background databases from UniProt, supporting annotations from over 18 taxonomies.

JOURNAL OF MOLECULAR BIOLOGY (2021)

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Article Biochemistry & Molecular Biology

The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets

Damian Szklarczyk et al.

Summary: The STRING database integrates various associations between proteins, including physical interactions and functional associations, by collecting evidence from sources such as literature, databases, computational predictions, and systematic transfers. STRING aims for wide coverage and provides extensive user interface features and querying methods for experimental data.

NUCLEIC ACIDS RESEARCH (2021)

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Review Biochemistry & Molecular Biology

A guide to the composition and functions of the extracellular matrix

Nikos K. Karamanos et al.

Summary: Extracellular matrix (ECM) is a dynamic 3-dimensional network of macromolecules providing structural support for cells and tissues. It plays key regulatory roles in cell signaling, functions, and morphology. Different ECM components affect cell processes such as proliferation, migration, differentiation, angiogenesis, and immunity regulation, with structural alterations associated with disease progression.

FEBS JOURNAL (2021)

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Review Cell Biology

Biomarkers of Join Damage in Osteoarthritis: Current Status an Future Directions

Rajkamal Kumavat et al.

Summary: Osteoarthritis is a disease characterized by loss of cartilage and structural changes in bone, but there are currently no specific biomarkers available for diagnosis or treatment. The most urgent clinical need is for monitoring disease progression over a short period.

MEDIATORS OF INFLAMMATION (2021)

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Review Biochemistry & Molecular Biology

Syndecan-1 (CD138), Carcinomas and EMT

John R. Couchman

Summary: Cell surface proteoglycans, such as syndecans, play crucial roles in regulating cell behavior, including interactions with extracellular matrix components and mediating proliferation, adhesion, and migration. In tumors, changes in the levels and distribution of syndecan-1 can have implications for prognosis, with loss of membrane staining and abnormal cytoplasmic or nuclear staining often indicating poor outcomes. Targeting syndecan-1 with antibody-toxin conjugates may hold promise for clinical applications in both myeloma and some carcinomas.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

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Article Oncology

Differential MMP-14 Targeting by Lumican-Derived Peptides Unraveled by In Silico Approach

Jonathan Dauve et al.

Summary: This study investigated the interactions between lumican-derived peptides and MMP-14 using molecular modeling. The results showed that different types of lumican-derived peptides have varying effects on MMP-14 activity, inhibiting melanoma cell migration and proliferation.

CANCERS (2021)

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Article Cell Biology

Hyaluronan-Based Gel Promotes Human Dental Pulp Stem Cells Bone Differentiation by Activating YAP/TAZ Pathway

Marcella La Noce et al.

Summary: The study found that different forms of hyaluronans enhance osteogenic differentiation in human dental pulp stem cells, with the hybrid cooperative complex (HCC) being the primary inducer, resulting in overexpression of bone-related markers and upregulation of CD44. This biological process is subordinate to the activation of the YAP/TAZ pathway.

CELLS (2021)

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Review Biochemistry & Molecular Biology

CD44: A Multifunctional Mediator of Cancer Progression

Malak Hassn Mesrati et al.

Summary: CD44, a non-kinase cell surface transmembrane glycoprotein, is widely implicated as a cancer stem cell marker in multiple cancers. Cells overexpressing CD44 possess CSC traits and resistance to therapy. The CD44 gene undergoes alternative splicing, resulting in different isoforms that interact with various ligands and drive cancer-associated signaling pathways. However, the association between CD44 expression levels and clinicopathological features is contradictory, although high CD44 expression significantly contributes to tumorigenic mechanisms.

BIOMOLECULES (2021)

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Article Orthopedics

Differentiated activities of decorin and biglycan in the progression of post-traumatic osteoarthritis

B. Han et al.

Summary: In post-traumatic osteoarthritis (PTOA), decorin plays a more crucial role than biglycan in regulating cartilage degeneration, while biglycan is more important in regulating subchondral bone structure. The two have distinct activities and modest synergy in the pathogenesis of PTOA.

OSTEOARTHRITIS AND CARTILAGE (2021)

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Review Oncology

Key Matrix Remodeling Enzymes: Functions and Targeting in Cancer

Zoi Piperigkou et al.

Summary: Proteolytic enzymes and non-proteolytic enzymatic partners play crucial roles in cancer cell propagation and metastatic potential. This article revisits the functions of major matrix remodeling molecules and discusses their epigenetic regulation mechanisms, pharmacological targeting, and ongoing clinical trials. The importance of targeting matrix remodeling partners for cancer management is explored in relation to tissue homeostasis and ECM turnover.

CANCERS (2021)

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Review Biochemistry & Molecular Biology

Matrix metalloproteinase contribution in management of cancer proliferation, metastasis and drug targeting

Nabil M. Abdel-Hamid et al.

Summary: Matrix metalloproteinases (MMPs) are a zinc-dependent endopeptidase family involved in the remodeling of the extracellular matrix, leading to various diseases. Overexpression of MMPs is associated with poor prognosis of cancer. Various synthetic and natural inhibitors have been designed to target different aspects of MMPs.

MOLECULAR BIOLOGY REPORTS (2021)

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Review Biochemistry & Molecular Biology

Extracellular matrix-based cancer targeting

Nikos K. Karamanos et al.

Summary: Tumor extracellular matrix collaborates with cancer and stroma cells to facilitate the multistep process of metastasis, highlighting the importance of ECM networks in cancer therapeutics and diagnostics.

TRENDS IN MOLECULAR MEDICINE (2021)

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Review Cell Biology

The Extracellular Matrix in Skin Inflammation and Infection

Karin Pfisterer et al.

Summary: The extracellular matrix (ECM) is a crucial component in tissue homeostasis and repair, with functions beyond providing physical stability. It actively supports the dynamic interactions within tissues and immune cells, while also being exploited by pathogens for infection and linked to genetic conditions. Understanding the composition, structure, and function of ECM is key to comprehending its broader impact on human health.

FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY (2021)

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Article Biochemistry & Molecular Biology

Transitional cell carcinoma matrix stiffness regulates the osteopontin and YAP expression in recurrent patients

Hadi Ghasemi et al.

Summary: The study found that matrix stiffness was significantly higher in TCCs than in adjacent tissues, and the genes YAP, SPP1, and IHH were upregulated in TCC tissues. Additionally, OPN protein overexpression was observed in the tissue and serum of TCC patients.

MOLECULAR BIOLOGY REPORTS (2021)

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Review Oncology

The matrix in cancer

Thomas R. Cox

Summary: Alterations in the extracellular matrix play a crucial role in the development and progression of solid tumours, and our understanding of matrix biology is expanding. New approaches targeting the matrix in cancer are being developed.

NATURE REVIEWS CANCER (2021)

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Article Biochemistry & Molecular Biology

MatrisomeDB: the ECM-protein knowledge database

Xinhao Shao et al.

NUCLEIC ACIDS RESEARCH (2020)

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Review Cell Biology

Profile of Matrix-Remodeling Proteinases in Osteoarthritis: Impact of Fibronectin

Selene Perez-Garcia et al.

CELLS (2020)

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Review Pharmacology & Pharmacy

Proteoglycans in Biomedicine: Resurgence of an Underexploited Class of ECM Molecules

Tanaya Walimbe et al.

FRONTIERS IN PHARMACOLOGY (2020)

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Article Oncology

Pan-Cancer Analysis of the Genomic Alterations and Mutations of the Matrisome

Valerio Izzi et al.

CANCERS (2020)

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Review Multidisciplinary Sciences

Concepts of extracellular matrix remodelling in tumour progression and metastasis

Juliane Winkler et al.

NATURE COMMUNICATIONS (2020)

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Article Cell Biology

ΕGFR/ERβ-Mediated Cell Morphology and Invasion Capacity Are Associated with Matrix Culture Substrates in Breast Cancer

Konstantina Kyriakopoulou et al.

CELLS (2020)

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Review Oncology

CD44 as a tumor biomarker and therapeutic target

Hanxiao Xu et al.

EXPERIMENTAL HEMATOLOGY & ONCOLOGY (2020)

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Review Medicine, Research & Experimental

Towards extracellular matrix normalization for improved treatment of solid tumors

Hoda Soleymani Abyaneh et al.

THERANOSTICS (2020)

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Review Pharmacology & Pharmacy

Soluble syndecans: biomarkers for diseases and therapeutic options

Jessica Bertrand et al.

BRITISH JOURNAL OF PHARMACOLOGY (2019)

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Article Biochemistry & Molecular Biology

Matrix modeling and remodeling: A biological interplay regulating tissue homeostasis and diseases

Nikos K. Karamanos et al.

MATRIX BIOLOGY (2019)

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Review Biochemistry & Molecular Biology

The extracellular matrix as a multitasking player in disease

Achilleas D. Theocharis et al.

FEBS JOURNAL (2019)

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Review Medical Laboratory Technology

Small Leucine Rich Proteoglycans (decorin, biglycan and lumican) in cancer

Sandeep Appunni et al.

CLINICA CHIMICA ACTA (2019)

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Article

Elevated preoperative serum levels of collagen I carboxyterminal telopeptide predict better outcome in early-stage luminal-B-like (HER2-negative) and triple-negative subtypes of breast cancer

Anniina Jääskeläinen et al.

TUMOR BIOLOGY (2019)

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Article Medicine, General & Internal

Collagen Fiber Array of Peritumoral Stroma Influences Epithelial-to-Mesenchymal Transition and Invasive Potential of Mammary Cancer Cells

Marco Franchi et al.

JOURNAL OF CLINICAL MEDICINE (2019)

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Review Oncology

The role of fibromodulin in cancer pathogenesis: implications for diagnosis and therapy

Mohammad Hossein Pourhanifeh et al.

CANCER CELL INTERNATIONAL (2019)

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Review Cell Biology

Integrins as biomechanical sensors of the microenvironment

Jenny Z. Kechagia et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2019)

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Review Pharmacology & Pharmacy

Hyaluronan as tunable drug delivery system

Alberto Passi et al.

ADVANCED DRUG DELIVERY REVIEWS (2019)

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Review Biochemistry & Molecular Biology

Markers of pancreatic cancer stem cells and their clinical and therapeutic implications

Arkadiusz Gzil et al.

MOLECULAR BIOLOGY REPORTS (2019)

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Article Oncology

Non-invasive profiling of protease-specific elastin turnover in lung cancer: biomarker potential

Jeppe Thorlacius-Ussing et al.

JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY (2019)

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Article Biochemistry & Molecular Biology

MatrixDB: integration of new data with a focus on glycosaminoglycan interactions

Olivier Clerc et al.

NUCLEIC ACIDS RESEARCH (2019)

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Article Biochemistry & Molecular Biology

IID 2018 update: context-specific physical protein-protein interactions in human, model organisms and domesticated species

Max Kotlyar et al.

NUCLEIC ACIDS RESEARCH (2019)

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Article Biochemistry & Molecular Biology

FunCoup 4: new species, data, and visualization

Christoph Ogris et al.

NUCLEIC ACIDS RESEARCH (2018)

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Review Nanoscience & Nanotechnology

Extracellular matrix remodeling in 3D: implications in tissue homeostasis and disease progression

Andrew J. Ford et al.

WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY (2018)

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Article Gastroenterology & Hepatology

Analysis of Syndecan-2 Methylation in Bowel Lavage Fluid for the Detection of Colorectal Neoplasm

Young Sook Park et al.

GUT AND LIVER (2018)

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Review Pathology

Charting the unexplored extracellular matrix in cancer

Elysse C. Filipe et al.

INTERNATIONAL JOURNAL OF EXPERIMENTAL PATHOLOGY (2018)

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Review Biochemistry & Molecular Biology

Extracellular matrix in lung development, homeostasis and disease

Yong Zhou et al.

MATRIX BIOLOGY (2018)

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Article Biochemistry & Molecular Biology

Serglycin promotes breast cancer cell aggressiveness: Induction of epithelial to mesenchymal transition, proteolytic activity and IL-8 signaling

Panagiotis Bouris et al.

MATRIX BIOLOGY (2018)

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Article

Glypican-1 is enriched in circulating-exosomes in pancreatic cancer and correlates with tumor burden

Adam E. Frampton et al.

Oncotarget (2018)

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Review Cell Biology

Advances in targeting epidermal growth factor receptor signaling pathway in mammary cancer

Konstantina Kyriakopoulou et al.

CELLULAR SIGNALLING (2018)

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Review Chemistry, Multidisciplinary

Proteoglycan Chemical Diversity Drives Multifunctional Cell Regulation and Therapeutics

Nikos K. Kararnanos et al.

CHEMICAL REVIEWS (2018)

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Article Medicine, Research & Experimental

An aggrecan fragment drives osteoarthritis pain through Toll-like receptor 2

Rachel E. Miller et al.

JCI INSIGHT (2018)

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Review Biochemistry & Molecular Biology

Syndecans - key regulators of cell signaling and biological functions

Nikolaos A. Afratis et al.

FEBS JOURNAL (2017)

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Article Biochemistry & Molecular Biology

Quantitative proteomics analysis of cartilage response to mechanical injury and cytokine treatment

Yang Wang et al.

MATRIX BIOLOGY (2017)

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Article Biochemistry & Molecular Biology

Roles and targeting of the HAS/hyaluronan/CD44 molecular system in cancer

Evgenia Karousou et al.

MATRIX BIOLOGY (2017)

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Review Biochemistry & Molecular Biology

A current view of perlecan in physiology and pathology: A mosaic of functions

Maria A. Gubbiotti et al.

MATRIX BIOLOGY (2017)

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Article Multidisciplinary Sciences

Elevated N-telopeptide as a potential diagnostic marker for bone metastasis in lung cancer: A meta-analysis

Boxuan Liu et al.

PLOS ONE (2017)

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Article Multidisciplinary Sciences

A Comprehensive Evaluation of the Activity and Selectivity Profile of Ligands for RGD-binding Integrins

Tobias G. Kapp et al.

SCIENTIFIC REPORTS (2017)

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Article Multidisciplinary Sciences

Unraveling the roles of CD44/CD24 and ALDH1 as cancer stem cell markers in tumorigenesis and metastasis

Wenzhe Li et al.

SCIENTIFIC REPORTS (2017)

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Review Cell Biology

CD44: A Multifunctional Cell Surface Adhesion Receptor Is a Regulator of Progression and Metastasis of Cancer Cells

Linda T. Senbanjo et al.

FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY (2017)

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Review Pharmacology & Pharmacy

Molecular imaging of the extracellular matrix in the context of atherosclerosis

Carolin Reimann et al.

ADVANCED DRUG DELIVERY REVIEWS (2017)

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Article Medicine, Research & Experimental

Tumor angiogenesis of SCLC inhibited by decreased expression of FMOD via downregulating angiogenic factors of endothelial cells

Zhi Ao et al.

BIOMEDICINE & PHARMACOTHERAPY (2017)

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Article Respiratory System

Biomarkers of extracellular matrix turnover are associated with emphysema and eosinophilic-bronchitis in COPD

Asger Reinstrup Bihlet et al.

RESPIRATORY RESEARCH (2017)

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Review Pharmacology & Pharmacy

Decorin as a multivalent therapeutic agent against cancer

Thomas Neill et al.

ADVANCED DRUG DELIVERY REVIEWS (2016)

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Review Pharmacology & Pharmacy

Extracellular matrix structure

Achilleas D. Theocharis et al.

ADVANCED DRUG DELIVERY REVIEWS (2016)

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Review Biochemistry & Molecular Biology

Minireview: Syndecans and their crucial roles during tissue regeneration

Heesung Chung et al.

FEBS LETTERS (2016)

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Review Pharmacology & Pharmacy

Discoidin Domain Receptors: Potential Actors and Targets in Cancer

Hassan Rammal et al.

FRONTIERS IN PHARMACOLOGY (2016)

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Article Biochemistry & Molecular Biology

Pivotal role for decorin in angiogenesis

Hannu Jarvelainen et al.

MATRIX BIOLOGY (2015)

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Article Biochemistry & Molecular Biology

IMP 2.0: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks

Aaron K. Wong et al.

NUCLEIC ACIDS RESEARCH (2015)

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Article Multidisciplinary Sciences

Mechanical forces regulate the interactions of fibronectin and collagen I in extracellular matrix

Kristopher E. Kubow et al.

NATURE COMMUNICATIONS (2015)

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Review Cell Biology

The integrin adhesome: from genes and proteins to human disease

Sabina E. Winograd-Katz et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2014)

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Article Cell Biology

The extracellular matrix at a glance

Christian Frantz et al.

JOURNAL OF CELL SCIENCE (2010)

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Article Biochemistry & Molecular Biology

Cytoscape: A software environment for integrated models of biomolecular interaction networks

P Shannon et al.

GENOME RESEARCH (2003)

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