D. Fabris

发表

Bifunctional cross-linking approaches for mass spectrometry-based investigation of nucleic acids and protein-nucleic acid assemblies.

M. Scalabrin, S. Dixit, M. M. Makshood, 2018, Methods.

Mass spectrometric approaches for the investigation of dynamic processes in condensed phase.

D. Fabris, 2005, Mass spectrometry reviews.

Elucidating the higher-order structure of biopolymers by structural probing and mass spectrometry: MS3D.

D. Fabris, E. Yu, 2010, Journal of mass spectrometry : JMS.

Mass spectrometric investigation of protein alkylation by the RNA footprinting probe kethoxal.

D. Fabris, E. Yu, O. Akinsiku, 2005, Journal of mass spectrometry : JMS.

Positive-sense RNA viruses reveal the complexity and dynamics of the cellular and viral epitranscriptomes during infection

Cara T. Pager, D. Fabris, E. Henderson, 2018, Nucleic acids research.

A eole for the MS analysis of nucleic acids in the post-genomics age

D. Fabris, 2010, Journal of the American Society for Mass Spectrometry.

Rapid purification of RNA secondary structures.

Stacy L. Gelhaus, G. Amarasinghe, D. Fabris, 2003, Nucleic acids research.

CoSIMS: An Optimized Trajectory-Based Collision Simulator for Ion Mobility Spectrometry.

S. Ranganathan, D. Fabris, Alan A. Chen, 2019, The journal of physical chemistry. B.

Clerocidin alkylates DNA through its epoxide function: evidence for a fine tuned mechanism of action.

B. Gatto, M. Palumbo, D. Fabris, 2003, Nucleic acids research.

Non-Natural Linker Configuration in 2,6-Dipeptidyl-Anthraquinones Enhances the Inhibition of TAR RNA Binding/Annealing Activities by HIV-1 NC and Tat Proteins.

G. Caliendo, V. Santagada, E. Perissutti, 2018, Bioconjugate chemistry.

Untying the FIV frameshifting pseudoknot structure by MS3D.

D. Fabris, E. Yu, Qingrong Zhang, 2005, Journal of molecular biology.

Modular calibrant sets for the structural analysis of nucleic acids by ion mobility spectrometry mass spectrometry.

S. Ranganathan, D. Fabris, Srivathsan V Ranganathan, 2016, The Analyst.

Characterization of allosteric insulin hexamers by electrospray ionization mass spectrometry.

C. Fenselau, D. Fabris, 1999, Analytical chemistry.

MS-Based Approaches for Nucleic Acid Structural Determination

D. Fabris, 2014 .

Higher-order structure of nucleic acids in the gas phase: top-down analysis of base-pairing interactions.

D. Fabris, K. Kellersberger, J. Wilhide, 2012, International journal of mass spectrometry.

Probing anomalous structural features in polypurine tract-containing RNA-DNA hybrids with neomycin B.

Robert G. Brinson, Kevin B. Turner, S. L. Le Grice, 2009, Biochemistry.

MS analysis of nucleic acids in the post-genomic era.

D. Fabris, 2011, Analytical chemistry.

Covalent sequestration of the nitrogen mustard mechlorethamine by metallothionein.

C. Fenselau, D. Fabris, M. Antoine, 1998, Drug metabolism and disposition: the biological fate of chemicals.

Nested Arg-specific bifunctional crosslinkers for MS-based structural analysis of proteins and protein assemblies.

D. Fabris, Qingrong Zhang, E. Crosland, 2008, Analytica chimica acta.

Kinetic study of β‐amyloid residue accessibility using reductive alkylation and mass spectrometry

D. Fabris, T. Good, W. Qi, 2009, Biotechnology and bioengineering.

Toward building a database of bifunctional probes for the MS3D investigation of nucleic acids structures

D. Fabris, E. Yu, K. Kellersberger, 2006, Journal of the American Society for Mass Spectrometry.

High-energy collision-induced dissociation of multiply charged polypeptides produced by electrospray

C. Fenselau, D. Fabris, C. Murphy, 1993, Journal of the American Society for Mass Spectrometry.

Alkylation of nucleic acids by the antitumor agent COMC.

B. Ganem, D. Fabris, D. J. Creighton, 2002, Organic letters.

Collision energy effects on the collision-induced dissociation of multiply charged melittin.

C. Fenselau, D. Fabris, M. Kelly, 1994, Rapid communications in mass spectrometry : RCM.

Bis-3-Chloropiperidines Targeting TAR RNA as A Novel Strategy to Impair the HIV-1 Nucleocapsid Protein

B. Gatto, D. Fabris, R. Göttlich, 2021, Molecules.

Au(iii) compounds as HIV nucleocapsid protein (NCp7)-nucleic acid antagonists.

R. Ptak, N. Farrell, D. Fabris, 2016, Chemical communications.

Mechanisms of HIV-1 Nucleocapsid Protein Inhibition by Lysyl-Peptidyl-Anthraquinone Conjugates.

B. Gatto, P. Rovero, D. Fabris, 2016, Bioconjugate chemistry.

Polyphenolic C-glucosidic ellagitannins present in oak-aged wine inhibit HIV-1 nucleocapsid protein

B. Gatto, D. Fabris, S. Quideau, 2015 .

Change in the Molecular Dimension of a RAGE-Ligand Complex Triggers RAGE Signaling.

A. Schmidt, M. Scalabrin, D. Fabris, 2016, Structure.

Site-specific fluorescence labelling of RNA using bio-orthogonal reaction of trans-cyclooctene and tetrazine.

M. Royzen, D. Fabris, P. Asare-Okai, 2014, Chemical communications.

Motif orientation matters: structural characterization of TEAD1 recognition of genomic DNA.

D. Kavan, J. Černý, P. Man, 2020, Structure.

MS-Based Approaches Enable the Structural Characterization of Transcription Factor/DNA Response Element Complex

D. Kavan, P. Man, D. Fabris, 2019, Biomolecules.

ASO5-1 C9ORF72 Manuscript – 05Feb2021 POTENT MIXED BACKBONE ANTISENSE OLIGONUCLEOTIDE SAFELY SUPPRESSES EXPRESSION OF MUTANT C9ORF72 TRANSCRIPTS AND POLYDIPEPTIDES: FIRST IN HUMAN PILOT STUDY

Robert H. Brown, R. Bowser, D. Fabris, 2021 .

Suppression of mutant C9orf72 expression by a potent mixed backbone antisense oligonucleotide

Robert H. Brown, R. Bowser, D. Fabris, 2021, Nature Medicine.

Potent Mixed Backbone Antisense Oligonucleotide Safety Suppressed Expression of Mutant C9ORF72 Transcripts and Polypeptides: First in Human Pilot Study

Robert H. Brown, R. Bowser, D. Fabris, 2021 .

Prospective type 1 and type 2 disulfides of Keap1 protein.

A. Mesecar, D. Fabris, A. Eggler, 2008, Chemical research in toxicology.

Monitoring metal ion flux in reactions of metallothionein and drug‐modified metallothionein by electrospray mass spectrometry

J. Zaia, R. Karpel, C. Fenselau, 1998, Protein science : a publication of the Protein Society.

Current-controlled nanospray ionization mass spectrometry

D. Fabris, A. Gapeev, Alberto Berton, 2009, Journal of the American Society for Mass Spectrometry.

Characterization of intermediates in the oxidation of zinc fingers in human immunodeficiency virus type 1 nucleocapsid protein P7.

Y. Hathout, C. Fenselau, D. Fabris, 1996, Drug metabolism and disposition: the biological fate of chemicals.

Analyzing RNA posttranscriptional modifications to decipher the epitranscriptomic code.

D. Fabris, L. Deng, J. Kumar, 2022, Mass spectrometry reviews.

Atmospheric pressure MALDI-fourier transform mass spectrometry.

D. Fabris, V. Doroshenko, K. Kellersberger, 2004, Analytical chemistry.

Profiling ribonucleotide modifications at full-transcriptome level: a step toward MS-based epitranscriptomics

D. Fabris, R. Quinn, R. Rose, 2015, RNA.

Conversions of Formaldehyde-modified 2′-Deoxyadenosine 5′-Monophosphate in Conditions Modeling Formalin-fixed Tissue Dehydration

D. Fabris, V. Rait, T. O'Leary, 2006, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society.

Inhibitory effects of archetypical nucleic acid ligands on the interactions of HIV-1 nucleocapsid protein with elements of Ψ-RNA

Kevin B. Turner, D. Fabris, Nathan A. Hagan, 2006, Nucleic acids research.

Functional Investigations of Retroviral Protein—Ribonucleic Acid Complexes by Nanospray Fourier Transform Ion Cyclotron Resonance Mass Spectrometry

Kevin B. Turner, D. Fabris, Nathan A. Hagan, 2007, European journal of mass spectrometry.

Assessment of Gas Phase Basicities of Protonated Peptides by the Kinetic Method

C. Fenselau, D. Fabris, I. Kaltashov, 1995 .

Targeting loop adenines in G-quadruplex by a selective oxirane.

N. Zaffaroni, M. Palumbo, M. Scalabrin, 2013, Chemistry.

Covalent sequestration of phosphoramide mustard by metallothionein--an in vitro study.

C. Fenselau, D. Fabris, D. Wei, 1999, Drug metabolism and disposition: the biological fate of chemicals.

Mass spectrometric approaches in the characterization of the decomposition products of Dowicil 200

P. Traldi, D. Fabris, A. Bettero, 1991 .

Behind the Mirror: Chirality Tunes the Reactivity and Cytotoxicity of Chloropiperidines as Potential Anticancer Agents

B. Gatto, D. Fabris, R. Göttlich, 2019, ACS medicinal chemistry letters.

Direct and Topoisomerase II Mediated DNA Damage by Bis‐3‐chloropiperidines: The Importance of Being an Earnest G

B. Gatto, D. Fabris, Nina Schmitt, 2017, ChemMedChem.

Effects of common buffer systems on drug activity: the case of clerocidin.

B. Gatto, G. Capranico, M. Palumbo, 2004, Chemical research in toxicology.

Measuring the binding stoichiometry of HIV-1 Gag to very-low-density oligonucleotide surfaces using surface plasmon resonance spectroscopy.

Kevin B. Turner, A. Stephen, R. Fisher, 2007, Journal of biomolecular techniques : JBT.

Retention of Thiol Protons in Two Classes of Protein Zinc Ion Coordination Centers

J. Zaia, Y. Hathout, C. Fenselau, 1996 .

Identification of novel 2-benzoxazolinone derivatives with specific inhibitory activity against the HIV-1 nucleocapsid protein.

B. Gatto, M. Botta, Y. Mély, 2018, European journal of medicinal chemistry.

Stoichiometry in zinc ion transfer from metallothionein to zinc finger peptides

Y. Hathout, C. Fenselau, D. Fabris, 2001 .

Identification of a novel non-carbohydrate molecule that binds to the ribosomal A-site RNA.

Kevin B. Turner, Philip E. Johnson, D. Fabris, 2004, Bioorganic & Medicinal Chemistry Letters.

Revisiting Plus-Strand DNA Synthesis in Retroviruses and Long Terminal Repeat Retrotransposons: Dynamics of Enzyme: Substrate Interactions

S. L. Le Grice, D. Fabris, J. Marino, 2009, Viruses.

SHAMS: combining chemical modification of RNA with mass spectrometry to examine polypurine tract-containing RNA/DNA hybrids.

Robert G. Brinson, Kevin B. Turner, S. L. Le Grice, 2009, RNA.

Structural probing of the HIV-1 polypurine tract RNA:DNA hybrid using classic nucleic acid ligands

Robert G. Brinson, Kevin B. Turner, S. L. Le Grice, 2008, Nucleic acids research.

Concerted bis-alkylating reactivity of clerocidin towards unpaired cytosine residues in DNA.

M. Palumbo, D. Fabris, S. Richter, 2004, Nucleic Acids Research.

Cation-directed self-assembly of lipophilic nucleosides: the cation's central role in the structure and dynamics of a hydrogen-bonded assembly

Jeffery T. Davis, Xiaodong Shi, D. Fabris, 2002 .

Binding Cesium Ions with Nucleosides: Templated Self‐Assembly of Isoguanosine Pentamers

Bruce A. Moyer, Jeffery T. Davis, James C. Fettinger, 2000 .

Amino acid sequence analysis of the proteolytic cleavage products of the bovine immunodeficiency virus Gag precursor polypeptide

M. Gonda, C. Fenselau, D. Fabris, 1994, Journal of virology.

Atmospheric pressure MALDI-FTMS of normal and chemically modified RNA

D. Fabris, E. Yu, K. Kellersberger, 2005, Journal of the American Society for Mass Spectrometry.

The multifaceted roles of mass spectrometric analysis in nucleic acids drug discovery and development.

D. Fabris, T. Kenderdine, Thomas Kenderdine, 2021, Mass spectrometry reviews.

Constrained bisantrene derivatives as G-quadruplex binders

M. Scalabrin, D. Fabris, G. Ribaudo, 2016 .

2'-O-ribose methylation of transfer RNA promotes recovery from oxidative stress in Saccharomyces cerevisiae

Frank Doyle, D. Fabris, Lauren Endres, 2020, PloS one.

The RNA modification database, RNAMDB: 2011 update

Jef Rozenski, William A. Cantara, James A. McCloskey, 2010, Nucleic Acids Res..

Construction and structure studies of DNA-bipyridine complexes as versatile scaffolds for site-specific incorporation of metal ions into DNA

J. Gan, S. Ranganathan, M. Scalabrin, 2019, Journal of biomolecular structure & dynamics.

Self-Assembled Ionophores from Isoguanosine

Jeffery T. Davis, D. Fabris, Sampath Tirumala, 1995 .

B-CePs as cross-linking probes for the investigation of RNA higher-order structure

B. Gatto, D. Fabris, R. Göttlich, 2021, Nucleic acids research.

A coarse-grained model for assisting the investigation of structure and dynamics of large nucleic acids by ion mobility spectrometry-mass spectrometry.

S. Ranganathan, D. Fabris, J. Lippens, 2017, Physical chemistry chemical physics : PCCP.

Global Epitranscriptomics Profiling of RNA Post-Transcriptional Modifications as an Effective Tool for Investigating the Epitranscriptomics of Stress Response*

M. Curcio, D. Fabris, R. Rose, 2015, Molecular & Cellular Proteomics.

The collaboratory for MS3D: a new cyberinfrastructure for the structural elucidation of biological macromolecules and their assemblies using mass spectrometry-based approaches.

Irwin D Kuntz, Malin M. Young, Eizadora T Yu, 2008, Journal of proteome research.

Mapping noncovalent ligand binding to stemloop domains of the HIV-1 packaging signal by tandem mass spectrometry

Andrew S. Kohlway, Kevin B. Turner, D. Fabris, 2006, Journal of the American Society for Mass Spectrometry.

Toward multiplexing the application of solvent accessibility probes for the investigation of RNA three-dimensional structures by electrospray ionization-Fourier transform mass spectrometry.

D. Fabris, E. Yu, 2004, Analytical biochemistry.

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.

D. Fabris, E. Yu, 2003, Journal of molecular biology.

Nucleolin stabilizes G-quadruplex structures folded by the LTR promoter and silences HIV-1 viral transcription

Giorgio Palù, Rosalba Perrone, G. Palù, 2015, Nucleic acids research.

1 MS-based approaches enable the structural 2 characterization of transcription factor / DNA 3 response element complex 4

William, D. Kavan, P. Man, 2019 .

Structure of an engineered intein reveals thiazoline ring and provides mechanistic insight

M. Belfort, G. Belfort, M. Scalabrin, 2019, Biotechnology and bioengineering.

Characterization of calcium, nucleotide, phosphate, and vanadate bound states by derivatization of sarcoplasmic reticulum ATPase with ThioGlo1.

D. Fabris, G. Inesi, S. Hua, 1999, Biophysical journal.

Intracellular sequestration of anti-tumor drugs by metallothionein.

C. Fenselau, D. Fabris, T. He, 2000, Cellular and molecular biology.

Sequencing electroblotted proteins by tandem mass spectrometry.

C. Fenselau, D. Fabris, R. Cotter, 1995, Rapid communications in mass spectrometry : RCM.

High-Resolution Ion Mobility Spectrometry-Mass Spectrometry of Isomeric/Isobaric Ribonucleotide Variants.

J. Langridge, M. Royzen, D. Fabris, 2019, Journal of mass spectrometry : JMS.

Decreased asialotransferrin in cerebrospinal fluid of patients with childhood-onset ataxia and central nervous system hypomyelination/vanishing white matter disease.

A. Vanderver, E. Hoffman, R. Schiffmann, 2005, Clinical chemistry.

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.

Andrew S. Kohlway, Kevin B. Turner, D. Fabris, 2009, Biopolymers.

Understanding the isomerization of the HIV-1 dimerization initiation domain by the nucleocapsid protein.

Kevin B. Turner, D. Fabris, Nathan A. Hagan, 2007, Journal of molecular biology.

Dissecting the protein-RNA and RNA-RNA interactions in the nucleocapsid-mediated dimerization and isomerization of HIV-1 stemloop 1.

D. Fabris, Nathan A. Hagan, 2007, Journal of molecular biology.

Complex interactions of HIV-1 nucleocapsid protein with oligonucleotides

Robert H. Shoemaker, Daniele Fabris, Andrew G. Stephen, 2006, Nucleic Acids Research.

The essential role of stacking adenines in a two-base-pair RNA kissing complex.

Daniele Fabris, Angel E. Garcia, Sean Keller, 2013, Journal of the American Chemical Society.

RNA Structure Determination by Structural Probing and Mass Spectrometry: MS3D

D. Fabris, A. Hawkins, 2012 .

Methylation of rRNA as a host defense against rampant group II intron retrotransposition

M. Belfort, D. Fabris, R. Nemati, 2021, Mobile DNA.

Direct infusion analysis of nucleotide mixtures of very similar or identical elemental composition.

D. Fabris, Maria Basanta-Sanchez, R. Quinn, 2013, Journal of mass spectrometry : JMS.

Structures of the kinetically trapped i-motif DNA intermediates.

Melvin A. Park, J. Miksovska, D. Butcher, 2016, Physical chemistry chemical physics : PCCP.

Rapid puriﬁcation of RNA secondary structures

Stacy L. Gelhaus, G. Amarasinghe, D. Fabris, 2022 .

Direct mass spectrometric determination of the stoichiometry and binding affinity of the complexes between nucleocapsid protein and RNA stem-loop hairpins of the HIV-1 Psi-recognition element.

D. Fabris, Nathan A. Hagan, 2003, Biochemistry.

A2T and A2V Aβ peptides exhibit different aggregation kinetics, primary nucleation, morphology, structure, and LTP inhibition

Shaomin Li, D. Isaacson, G. Belfort, 2016, Proteins.

Structure-Specific Ribonucleases for MS-Based Elucidation of Higher-Order RNA Structure

M. Scalabrin, D. Fabris, Yik Siu, 2014, Journal of The American Society for Mass Spectrometry.

A simple heated-capillary modification improves the analysis of non-covalent complexes by Z-spray electrospray ionization.

D. Fabris, J. Mangrum, J. Lippens, 2016, Rapid communications in mass spectrometry : RCM.

Erratum: Profiling ribonucleotide modifications at full-transcriptome level: a step toward MS-based epitranscriptomics.

D. Fabris, R. Quinn, R. Rose, 2015, RNA.

Resistance to RevM10 inhibition reflects a conformational switch in the HIV-1 Rev response element

Kevin B. Turner, M. Legiewicz, S. L. Le Grice, 2008, Proceedings of the National Academy of Sciences.

A binding site for chlorambucil on metallothionein.

J. Zaia, C. Fenselau, D. Fabris, 1996, Biochemistry.

A chemical mechanism for inactivation of anticancer drugs by metallothionein

J. Zaia, Y. Hathout, C. Fenselau, 1999 .

Agnostic Framework for the Classification/Identification of Organisms Based on RNA Post-Transcriptional Modifications.

Cara T. Pager, D. Fabris, A. Ciota, 2021, Analytical chemistry.

Submicrometer Nanospray Emitters Provide New Insights into the Mechanism of Cation Adduction to Anionic Oligonucleotides.

D. Fabris, E. Williams, Zijie Xia, 2018, Analytical chemistry.

MS3D structural elucidation of the HIV-1 packaging signal

J. Eaton, D. Fabris, E. Yu, 2008, Proceedings of the National Academy of Sciences.

Catherine Fenselau: A distinguished career dedicated to biomedical mass spectrometry.

Y. Hathout, R. V. van Breemen, D. Fabris, 2020, Journal of mass spectrometry : JMS.

Like polarity ion/ion reactions enable the investigation of specific metal interactions in nucleic acids and their noncovalent assemblies.

Kevin B. Turner, D. Fabris, S. Monti, 2008, Journal of the American Chemical Society.

Top-down characterization of nucleic acids modified by structural probes using high-resolution tandem mass spectrometry and automated data interpretation.

Malin M. Young, G. Kruppa, D. Fabris, 2004, Analytical chemistry.

In Vitro Evaluation of Bis-3-Chloropiperidines as RNA Modulators Targeting TAR and TAR-Protein Interaction.

B. Gatto, D. Fabris, R. Göttlich, 2022, International journal of molecular sciences.

In Vitro Evaluation of Bis-3-Chloropiperidines as RNA Modulators Targeting TAR and TAR-Protein Interaction

B. Gatto, D. Fabris, R. Göttlich, 2021, International Journal of Molecular Sciences.

Investigation of Zinc Chelation in Zinc-Finger Arrays by Electrospray Mass Spectrometry.

Y. Hathout, C. Fenselau, D. Fabris, 1999, Inorganic Chemistry.

Massive cluster impact ionization on a four sector tandem mass spectrometer

C. Fenselau, D. Fabris, Zhuchun Wu, 1995 .

A eole for the MS analysis of nucleic acids in the post-genomics age

D. Fabris, 2010, Journal of the American Society for Mass Spectrometry.