We theoretically study the effect of the motion and the merging of Dirac cone on the interlayer magnetoresistance in multilayer graphene like systems. This merging, which could be induced by a uniaxial strain, gives rise in monolayer Dirac electron system to a topological transition from a semi-metallic phase to an insulating phase where Dirac points disappear. Based on a universal Hamiltonian proposed to describe the motion and the merging of Dirac points in two dimensional Dirac electron crystals, we calculate the interlayer conductivity of a stack of deformed graphene like layers using Kubo formula in the quantum limit where only the contribution of the Landau level is relevant. A crossover from a negative to a positive interlayer magnetoresistance is found to take place as the merging is approached. This sign change of the magnetoresistance could also result from a coupling between the Dirac valleys which is enhanced as the magnetic field amplitude increases. Our results may describe the behavior of the magnetotransport in the organic conductor -(BEDT)I at high pressure where the merging of Dirac cones could be observed.

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