Fig. 2

WGCNA of all the differentially expressed miRNAs. a Module clustering trees of control, stage II, stage III and stage IV constructed with all the differentially expressed miRNAs. Different colors represent different modules, and gray modules represent collections of miRNAs that were not assigned to any module. Dynamic tree cut: construction of the dynamic clustering tree; Merged dynamic: modules with high similarity were merged according to the minimum threshold of similarity. b The module network diagrams of control and stages II–IV obtained from the module clustering tree in a, by Cytoscape visualization. Different colors represent different modules. Different topological overlap thresholds were selected at different stages according to the size of the network and its accuracy, which were 0.05, 0.43, 0.05 and 0.05, respectively. Dark gray dots represent miRNAs that were not assigned to any module. c Module connection conditions of stage II (pink), stage III (yellow) and stage IV (green) after constructing the connections between modules of different stages. The strength of connection between different modules is expressed by the thickness of the line, with a higher thickness indicating a higher strength of connection. d Venn diagram of miRNAs in modules in c. e HMDD-aligned modules in c. f Venn diagram of miRNAs in modules in e