Caveat: I did not read the paper but can weigh in on this:
1. The eye has immune privilege, similar to that of the brain, meaning it can tolerate antigens that would normally trigger an immune response elsewhere, like your arm.
2. Fragments of proteins expressed internally are normally presented on the surface of cells through a process called antigen-presentation. This allows immune cells to "see" when cells are infected and expressing proteins in the cytosol they normally would not.
Together this means that exogenous expression of proteins in the eye do not trigger inflammation because the eye is immune privileged, but if those proteins were expressed in the arm, there would be an immune response even if proteins are only cytosolic.