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Is that possible to ask for funding of only a part of the clinical trial (ie: clinical trial with several periods; funding for just one of those periods)?

Answer: 

Your suggested project has to fully respond to the call text, i.e. reach the objectives and bring about the expected impacts listed in the work programme by the end of the project duration. If the project you are suggesting builds on results that are funded otherwise, that is a good thing. It has to be ensured though that the other periods are either already completed, or that funding is already secured – otherwise, reviewers may see this as too high a risk.