Origin of Discrepancies in Inelastic Electron Tunneling Spectra of Molecular Junctions

We report inelastic electron tunneling spectroscopy (IETS) of multilayer molecular junctions with and without incorporated metal nano-particles. The incorporation of metal nanoparticles into our devices leads to enhanced IET intensity and a modified line-shape for some vibrational modes. The enhancement and line-shape modification are both the result of a low lying hybrid metal nanoparticle-molecule electronic level. These observations explain the apparent discrepancy between earlier IETS measurements of alkane thiolate junctions by Kushmerick \emph{et al.} [Nano Lett. $\mathbf{\text{4}}$, 639 (2004)] and Wang \emph{et al.} [Nano Lett. $\mathbf{\text{4}}$, 643 (2004)].