I am interested in understanding the structural determinants of protein-nucleic acid interactions using alternative mass spectrometry based (MS3D) methods. Spatial constraints provided by footprinting, crosslinking and mass spectrometric detection can be used to obtain structural models for these macromolecular complexes. My graduate research was focused on developing MS3D methods for RNA structure determination, and was applied to retroviral RNA structures involved in ribosomal frameshifting and genome dimerization. I am currently working on applying MS3D methods to investigate protein-nucleic acid complexes involved in mammalian base excision repair (BER). In addition, I am also part of a team building a collaboratory for MS3D (C-MS3D).
Zhang Q,Yu ET, Kellersberger KA, Crosland E, Fabris D. (2006) "Toward building a database of bifunctional probes for the MS3D investigation of nucleic acids structures." J Am Soc Mass Spectrom 17(11): 1570-81.
Yu ET, Zhang Q, Fabris D. (2005) "Untying the FIV frameshifting pseudoknot structure by MS3D." J Mol Biol 345(1): 69-80.
Kellersberger, KA, Yu ET, Merenbloom, SI, Fabris D. (2005) "Atmospheric pressure MALDI-FTMS of normal and chemically modified RNA." J Am Soc Mass Spectrom 16(2): 199-207.
Akinsiku OT, Yu ET, Fabris, D. (2005) "Mass spectrometric investigation of protein alkylation by the RNA footprinting probe kethoxal." J Mass Spectrom 40(10): 1372-81.
Yu E, Fabris D. (2004) "Toward multiplexing the application of solvent accessibility probes for the investigation of RNA three-dimensional structures by electrospray ionization-Fourier transform mass spectrometry." Anal Biochem 334(2): 356-66.
Kellersberger KA, Yu E, Kruppa GH, Young MM, Fabris D. (2004) "Top-down characterization of nucleic acids modified by structural probes using high-resolution tandem mass spectrometry and automated data interpretation." Anal Chem 76(9):2438-45.
Yu E, Fabris D. (2003) " Direct probing of RNA structures and RNA-protein interactions in the HIV-1 packaging signal by chemical modification and electrospray ionization fourier transform mass spectrometry." J Mol Biol 330(2): 211-23.
Juinio-Menez M, Magsino R, Ravago-Gotanco R, Yu E. (2003) "Genetic structure of Linckia laevigata and Tridacna crocea populations in the Palawan shelf and shoal reefs." Marine Biology 142(4): 717-726.
Yu ET, Juinio-Menez MA, Monje VD. (2000) "Sequence variation in the ribosomal DNA internal transcribed spacer of Tridacna crocea." Mar Biotechnol 2(6): 511-6.
2006–Present Postdoctoral Fellow, Sandia National Laboratories, Livermore CA
2000-2006 Ph.D. Biochemistry, University of Maryland, Baltimore County, MD