Publications: D. Fabris

  • Fabris D, Limbach PA. (2010) Review of the 22nd Sanibel Conference on Mass Spectrometry: From Structural Biology to Drug Discovery: New Roles for Mass Spectrometry of Nucleic Acids. J Am Soc Mass Spectrom. Mar 6. [Epub ahead of print]
  • Fabris D. (2010) A role for the MS analysis of nucleic acids in the post-genomics age. J Am Soc Mass Spectrom. 21(1):1-13.
  • Turner KB, Yi-Brunozzi HY, Brinson RG, Marino JP, Fabris D, Le Grice SF. (2009) SHAMS: combining chemical modification of RNA with mass spectrometry to examine polypurine tract-containing RNA/DNA hybrids. RNA 15(8):1605-13.
  • Turner KB, Yi-Brunozzi HY, Le Grice SF, Fabris D, Marino JP. (2009) Probing anomalous structural features in polypurine tract-containing RNA-DNA hybrids with neomycin B. Brinson RG, Biochemistry. 48(29):6988-97.
  • Ramos I, Fabris D, Qi W, Fernandez EJ, Good TA. (2009) Kinetic study of beta-amyloid residue accessibility using reductive alkylation and mass spectrometry. Biotechnol Bioeng. 104(1):181-92.
  • Gapeev A, Berton A, Fabris D. (2009) Current-controlled nanospray ionization mass spectrometry. J Am Soc Mass Spectrom. 20(7):1334-41.
  • Fabris D. (2009) Special Series: advances in the investigation of the structure-function relationship in nucleic acids and their assemblies. Biopolymers. 91(6):v.
  • Fabris D. (2009) Special Series: Advances in the investigation of the structure-function relationship in nucleic acids and their assemblies. Biopolymers. 91(4):iii-iv.
  • Turner KB, Kohlway AS, Hagan NA, Fabris D. (2009) Noncovalent probes for the investigation of structure and dynamics of protein-nucleic acid assemblies: the case of NC-mediated dimerization of genomic RNA in HIV-1. Biopolymers 91(4):283-96.
  • Yu ET, Hawkins A, Kuntz ID, Rahn LA, Rothfuss A, Sale K, Young MM, Yang CL, Pancerella CM, Fabris D. (2008) The collaboratory for MS3D: a new cyberinfrastructure for the structural elucidation of biological macromolecules and their assemblies using mass spectrometry-based approaches. J Proteome Res., 7(11):4848-57.
  • Legiewicz M, Badorrek CS, Turner KB, Fabris D, Hamm TE, Rekosh D, Hammarskjöld ML, Le Grice SF. (2008) Resistance to RevM10 inhibition reflects a conformational switch in the HIV-1 Rev response element. Proc Natl Acad Sci U S A., 105(38):14365-70.
  • Turner, K. B.; Brinson, R. G.; Yi-Brunozzi, H. Y.; Rausch, J. W.; Miller, J. T. Le Grice, S. F. J.; Marino, J. P.; Fabris, D. (2008) “Recognition of HIV-1 Polypurine Tract RNA:DNA Hybrid by Classic Nucleic Acid Ligands” Nucleic Acids Res. 36, 2799-2810.
  • Zhang, Q.; Crosland, E.; Fabris, D. (2008) “Nested Arg-specific bifunctional crosslinkers for MS-based structural analysis of proteins and protein assemblies” Anal Chim Acta. 627(1):117-28.
  • Yu ET, Hawkins A, Eaton J, Fabris D. (2008) MS3D structural elucidation of the HIV-1 packaging signal. Proc Natl Acad Sci USA. 105(34):12248-53.
  • Holland R, Hawkins AE, Eggler AL, Mesecar AD, Fabris D, Fishbein JC.(2008) Prospective type 1 and type 2 disulfides of Keap1 protein. Chem Res Toxicol. 21(10):2051-60.
  • Hagan, N. A. and Fabris, D. (2007) “Dissecting the protein-RNA and RNA-RNA interactions in the nucleocapsid-mediated dimerization and isomerization of HIV-1 stemloop 1” J. Mol. Biol. 365, 396-410 .
  • Fabris, D.; Chaudhari, P.; Hagan, N. A.; Turner, K. B. (2007) “Functional Investigations of Retroviral Protein-RNA Complexes by Nanospray-FTICR Mass Spectrometry” Eur. J. Mass Spectrom. 13, 29-33 .
  • Turner, K. B.; Hagan, N. A.; Fabris, D. (2007) “Understanding the isomerization of the HIV-1 dimerization initiation domain by the nucleocapsid protein” J. Mol. Biol. 369, 812-828 .
  • Stephen, A. G.; Datta, S. A. K.; Worthy, K. M.; Bindu, L.; Fivash, M.J.; Turner, K. B.; Fabris, D.; Rein, A.; Fisher, R.J. (2007) “Measuring the binding stoichiometry of HIV-1 Gag to very-low-density oligonucleotide surfaces using plasmon resonance spectroscopy” J. Biomol. Tech. 18, 259-266 .
  • Turner, K. B.; Hagan, N. A..; Fabris, D. (2006) “Inhibitory effects of archetypical nucleic acid ligands on the interactions of HIV-1 nucleocapsid protein with elements of Y-RNA”, Nucleic Acids Res. 34, 1305-1316 .
  • Fisher, R.J.; Fivash, M.J.; Stephen, A.G.; Hagan, N.A.; Shenoy, S.R.; Medaglia, M.V.; Smith, L.R.; Worthy, K.M.; Simpson, J.T.; Shoemaker, R.; McNitt, K.L.; Johnson, D.J.; Hixson, C.V.; Gorelick, R.J.; Fabris, D.; Henderson, L.E.; Rein, A. (2006) “Complex interactions of HIV-1 nucleocapsid protein with oligonucleotides”, Nucleic Acids Res. 34, 472-484 .
  • Rait, V. K.; Zhang, Q.; Fabris, D.; Mason, J. T.; O’Leary, T. J. (2006) “Conversions of formaldehyde-modified 2´-deoxyadenosine 5´-monophosphate in conditions modeling formalin-fixed tissue dehydration” J. Histochem. Cytochem. 54, 301-310 .
  • Turner, K. B.; Hagan, N. A.; Kohlway, A.; Fabris, D. (2006) “Mapping noncovalent ligand binding to stemloop domains of the HIV-1 packaging signal by tandem mass spectrometry” J. Am. Soc. Mass Spectrom. 17, 1401-1411 , journal cover.
  • Zhang, Q.; Yu, E. T.; Kellersberger, K. A.; 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, 1570-1581 .