MatriCom: a scRNA-Seq data mining tool to infer ECM-ECM and cell-ECM communication systems.

ABSTRACT: The ECM is a complex and dynamic meshwork of proteins that forms the framework of all multicellular organisms. Protein interactions within the ECM are critical to building and remodeling the ECM meshwork, while interactions between ECM proteins and cell surface receptors are essential for the initiation of signal transduction and the orchestration of cellular behaviors. Here, we report the development of MatriCom, a web application (https://matrinet.shinyapps.io/matricom) and a companion R package (https://github.com/Izzilab/MatriCom), devised to mine scRNA-Seq datasets and infer communications between ECM components and between different cell populations and the ECM. To impute interactions from expression data, MatriCom relies on a unique database, MatriComDB, that includes over 25,000 cu

SUBMITTER: Lamba R 

PROVIDER: S-EPMC11702561 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature