As Anna kindly mentioned with that paper we used and described a protocol for cytometry of bead bound exosomes. The protocol is also in this paper: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0121184
Essentially:
Exosomes were resuspended in PBS, and aliquots of 5μL were incubated with 5μL of 4μm aldehyde/sulfate latex beads (Life Technologies), followed by an incubation of 5 min at room temperature. Then 20μL of PBS was added, and incubation was continued for another 15 min at room temperature. Thirty μL of 2% bovine serum albumin (BSA) in PBS was added and samples were blocked for 2 hours at room temperature. Then the Eppendorf tubes were filled with PBS, and were centrifuged at 2,700g for 3 min at room temperature. The supernatant was discarded, and the pellet was resuspended in 200μL of 100mM glycine in PBS, and was incubated for 30 min at room temperature. The Eppendorf tubes were filled again with PBS, and centrifuged at 2,700g for 3 min at room temperature. Then the supernatant was discarded, and the pellet was resuspended in 100μL of PBS for staining as described above.