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We carefully perform a Hamiltonian Dirac’s constraint analysis of Brans-Dicke theory with Gibbons-Hawking-York (GHY) boundary term. The Poisson brackets are computed via functional derivatives. After a brief summary of the results for case, we derive all Hamiltonian Dirac’s constraints and constraint algebra both in the Jordan and Einstein frames. Confronting and contrasting Dirac’s constraint algebra in both frames, it is shown that they are not equivalent. This highlights the transformations from the Jordan to the Einstein frames are not Hamiltonian canonical transformations.

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