Journal
MATRIX BIOLOGY
Volume 49, Issue -, Pages 10-24Publisher
ELSEVIER
DOI: 10.1016/j.matbio.2015.06.003
Keywords
Extracellular matrix; Matrisome; MatrisomeDB; ECM atlas; Bioinformatics; Proteomics
Categories
Funding
- National Cancer Institute - Tumor Microenvironment Network [U54 CA126515/CA163109]
- Broad Institute of MIT and Harvard
- Howard Hughes Medical Institute
- National Cancer Institute [P30-CA14051]
- Ludwig Center for Cancer Research
- NATIONAL CANCER INSTITUTE [U54CA126515, P30CA014051, U54CA163109] Funding Source: NIH RePORTER
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The extracellular matrix (ECM) is a fundamental component of multicellular organisms that provides mechanical and chemical cues that orchestrate cellular and tissue organization and functions. Degradation, hyperproduction or alteration of the composition of the ECM cause or accompany numerous pathologies. Thus, a better characterization of ECM composition, metabolism, and biology can lead to the identification of novel prognostic and diagnostic markers and therapeutic opportunities. The development over the last few years of high-throughput (omics) approaches has considerably accelerated the pace of discovery in life sciences. In this review, we describe new bioinformatic tools and experimental strategies for ECM research, and illustrate how these tools and approaches can be exploited to provide novel insights in our understanding of ECM biology. We also introduce a web platform the matrisome project and the database MatrisomeDB that compiles in silico and in vivo data on the matrisome, defined as the ensemble of genes encoding ECM and ECM-associated proteins. Finally, we present a first draft of an ECM atlas built by compiling proteomics data on the ECM composition of 14 different tissues and tumor types. (C) 2015 Elsevier B.V. All rights reserved.
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