Fig. 5

Differentially co-expressed genes form protein-protein interaction networks. Physical protein interaction (PPI) network analysis of gene products from selected co-expression clusters. Functional annotation keywords were used to assign color to proteins in the networks. (A) Co-expression cluster C0, encompassing genes that increase expression during migration, contains PPI nodes with migration-related functions (pink), including functions known to regulate border cell migration such as septate junction regulation (dark blue) and ecdysone response function (mustard). Individual networks consist of proteins with biosynthesis/metabolism (cyan, upper right) and migration-related (pink, lower right) functions. (B) Co-expression cluster C8, encompassing genes that increase expression, forms one major protein interaction network with migration-related (pink), multiple signaling pathways (light green), and gene expression regulation (light blue) functions. One individual network consists of proteins with migration-related and additional categories (upper left). (C) Co-expression cluster C6, encompassing genes that decrease during migration, forms large nodes for ribosome function (magenta), biosynthesis/metabolism (cyan), and regulation of gene expression (light blue). Individual networks consist of proteins with biosynthesis/metabolism (cyan, lower center). For each PPI network, the “other” category (gray) either denotes genes that do not have available FlyBase annotations/data or for which three or fewer genes were annotated. All data, including annotations and keywords, are shown in Supplemental Data 6