Advances in hardware and molecular force fields have given a boost to computational studies of the thermodynamics and dynamics of small-protein transitions. Because these studies are still hampered by the vast amount of CPU time required, new sampling techniques are still needed. In this work, several schemes were developed and used to increase the simulation efficiency of various systems and give insights on their structure, kinetics and mechanism. Our studies focus on recognizing markers that assist in antibody design or lead to protein misfolding and aggregation. Concerning...