ICBMS, UMR 5246 University Lyon 1, CNRS, Institute of Molecular and Supramolecular Chemistry and Biochemistry, Villeurbanne Cedex, France.
Methods Mol Biol. 2023;2619:211-224. doi: 10.1007/978-1-0716-2946-8_15.
This chapter describes how to generate, visualize, and analyze interaction networks of glycosaminoglycans (GAGs), which are linear polyanionic polysaccharides mostly located at the cell surface and in the extracellular matrix. The protocol is divided into three major steps: (1) the collection of GAG-mediated interaction data, (2) the visualization of GAG interaction networks, and (3) the computational enrichment analyses of these networks to identify their overrepresented features (e.g., protein domains, location, molecular functions, and biological pathways) compared to a reference proteome. These analyses are critical to interpret GAG interactomic datasets, decipher their specificities and functions, and ultimately identify GAG-protein interactions to target for therapeutic purpose.
本章介绍如何生成、可视化和分析糖胺聚糖（GAGs）的相互作用网络，这些线性聚阴离子多糖主要位于细胞表面和细胞外基质中。该方案分为三个主要步骤：（1）收集 GAG 介导的相互作用数据，（2）可视化 GAG 相互作用网络，以及（3）对这些网络进行计算富集分析，以识别与参考蛋白质组相比其过表达的特征（例如，蛋白质结构域、位置、分子功能和生物途径）。这些分析对于解释 GAG 相互作用数据集、破译其特异性和功能以及最终确定 GAG-蛋白质相互作用以用于治疗目的至关重要。
