Fig. 6

Changes in transcript packaging are negatively correlated with changes in cellular abundance. A Overview of tumor cell exposure procedure. B Log2 change in EV packaging and log2 fold change in cell abundance for protein-coding genes upon coculture. Orange = adjusted p-value < 0.1 in cocultured vs. monocultured cells. C Same as B for long noncoding genes. D Distribution of log2 fold differences of protein-coding and lncRNA genes (combined) between EVs and cells in genes increased in cells by coculture (top) or decreased in cells by coculture (bottom). Light purple = log2 fold difference distribution in monoculture cells. Dark purple = log2 fold difference distribution in cocultured cells. E GSEA analysis of gene sets enriched or depleted in cocultured vs. monocultured cells (left column) and in EVs derived from cocultured vs. monocultured cells (right column). All gene sets shown have FDR < 0.1 in cells. Individual values can be found in Additional file 17. F Depletion of MYC_TARGETS_V1 gene set in cocultured vs. monocultured cells and enrichment of the same gene set in EVs derived from cocultured vs. monocultured cells. All analyses were performed using 3 EV and 4 cell samples