Tools

MatrisomeDB is a web application originally developed by Dr. Naba and currently mainatained by the Naba lab in collaboration with the Gao lab. MatrisomeDB is a searchable collection of curated proteomic data on the ECM of healthy and diseased human and murine samples. 

Using MatrisomeDB? Please cite 

Shao X, Gomez CD, Kapoor N, Considine JM, Grams C, Gao Y, Naba A. MatrisomeDB 2.0: 2023 updates to the ECM-protein knowledge database. Nucleic Acids Research, 2022, gkac1009. doi.org/10.1093/nar/gkac1009

Matrisome AnalyzeR is a web application developed by the Naba and Izzi labs that uses Matrisome lists to identify matrisome genes/proteins in -omic datasets and annotates and tabulates these molecules according to matrisome divisions and categories.

Using Matrisome AnalyzeR? Please cite: 

Petrov PB, Considine JM, Izzi, V, and Naba A. Matrisome AnalyzeR: A suite of tools to annotate and quantify ECM molecules in big datasets across organisms. Journal of Cell Science, 2023, 136 (17): jcs261255. https://doi.org/10.1242/jcs.261255