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Laboratory for Biological and Medical Mass Spectrometry


 

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 Publications from the Mass Spec group
 
Mikhail M. Savitski, Michael L. Nielsen and Roman A. Zubarev
"New database-independent, sequence-tag-based scoring of peptide MS/MS data validates mowse scores, recovers below-threshold data, singles out modified peptides and assesses the quality of MS/MS techniques
Mol. Cell. Proteomics, 2005
 
Christopher M. Adams and Roman A. Zubarev
"Distinguishing and Quantifying Peptides and Proteins Containing D-Amino Acids by Tandem Mass Spectrometry"
Anal. Chem. 2005
 
Roman A. Zubarev, Matthias Witt and Gökhan Baykut
"Two-Fold Efficiency Increase by Selective Excitation of Ions for Consecutive Activation by Ion-Electron Reactions and Vibrational Excitation in Tandem Fourier Transform Ion Cyclotron Resonance Mass Spectrometry"
Anal. Chem. 77, (9), 2992-2996, 2005
 
Michael L. Nielsen, Mikhail M. Savitski and Roman A. Zubarev
"Improving protein identification using complementary fragmentation techniques in Fourier transform mass spectrometry"
Mol. Cell. Proteomics, 4, (6), 835-845, 2005
 
Frank Kjeldsen, Oleg A. Silivra, Igor A. Ivonin, Kin F. Haselmann, Mikhail Gorshkov and Roman A. Zubarev
"Cα-C Backbone Fragmentation Dominates in Electron Detachment Dissociation of Gas-Phase Polypeptide Polyanions"
Chem. Eur. J, 2005, 11, 1803-1812
 
Oleg A. Silivra, Frank Kjeldsen, Igor A. Ivonin and Roman A. Zubarev
"Electron Capture Dissociation of Polypeptides in a Three-Dimensional Quadrupole Ion Trap: Implementation and First Results"
J. Am. Soc. Mass Spectrom.
 
Thomas Köcher, Åke Engström and Roman A. Zubarev
"Fragmentation of Peptides in MALDI In-Source Decay Mediated by Hydrogen Radicals"
Anal. Chem. 2004, 77, 172-177
 
Michael L. Nielsen, Mikhail M. Savitski, Frank Kjeldsen and Roman A. Zubarev
"Physicochemical Properties Determinig the Detection Probability of Tryptic Peptides in Fourier Transform Mass Spectrometry. A Correlation Study"
Anal. Chem. 2004, 76, 5872-5877
 
Christopher M. Adams, Frank Kjeldsen, Bogdan A. Budnik, Kim F. Haselmann and Roman A. Zubarev
"Electron Capture Dissociation Distinguishes a Single D-Amino Acid in a Protein and Probes the Tertiary Structure"
J. Am. Soc. Mass Spectrom. 2004, 1087-1098
 
B.A. Budnik, J.V. Olsen, T.A. Egorov, V.E. Anisimova, T.G. Galkina, A.K. Mosolyamov, E.V. Grishin and R.A. Zubarev
"De novo sequencing of antimicrobial peptides isolated from the venom glands of the wolf spider Lycosa singoriensis"
J. Mass Spectrom. 39, 2004, 193-201
 
Roman A. Zubarev
"Electron-capture dissociation tandem mass spectrometry"
Current Opinion in Biotechnology 2004, 15, 12-16
 
Mikhail M. Savitski, Igor A. Ivonin, Michael L. Nielsen, Youri O. Tsybin, Per Håkansson and Roman A. Zubarev
"Shifted-basis technique improves accuracy of peak position determination in Fourier transform mass spectrometry"
J. Am. Soc. Mass Spectrom. 2004, 457-461
 
Bogdan A. Budnik, Kim F. Haselmann, Yu. N. Elkin, V. I. Gorbach and Roman A. Zubarev
Applications of Electron-Ion Dissociation Reactions for Analysis of Polycationic Citooligosaccharides in Fourier Transform Mass spectrometry
Anal. Chem. 2003, 75, 5994-6001
 
Roman A. Zubarev
"Reactions of polypeptide ions with electrons in the gas phase"
Mass Spec. Rev, 2003, 22, 57 - 77
 
Frank Kjeldsen and Roman A. Zubarev
"Secondary Losses via γ-Lactam Formation in Hot Electron Capture Dissociation: A Missing Link to Complete de Novo Sequencing of Proteins?"
J. Am. Chem. Soc. 2003, 125, 6628 - 6629
 
Frank Kjeldsen, Kim F. Haselmann, Bogdan A. Budnik, Esben S. Sørensen and Roman A. Zubarev
"Complete Characterization of Post-Translational Modification Sites in The Bovine Milk Protein PP3 by Tandem Mass Spectrometry with Electron Capture Dissociation as the Last Stage"
Anal. Chem. 2003, 75, 2355-2361
 
Michael L. Nielsen, Bogdan A. Budnik, Kim F. Haselmann and Roman A. Zubarev
"Tandem MALDI/EI ionization for Fourier transform ion cyclotron resonance mass spectrometry of polypeptides"
Int. J. Mass Spectrom., 226, 181 - 187, 2003
Frank Kjeldsen, Kim F. Haselmann, Esben S. Sørensen and Roman A. Zubarev
"Distinguishing of Ile/Leu Amino Acid Residues in the PP3 Protein by (Hot) Electron Capturre Dissociation in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry"
Anal. Chem, 2003, 75, 1267 - 1274
 
Frank Kjeldsen, Kim F. Haselmann, Bogdan A. Budnik, Frank Jensen and Roman A. Zubarev
"Dissociative capture of hot (3-13 eV) electrons by polypeptide polycations: an efficient process accompanied by secondary fragmentation"
Chem. Phys. Lett., 356, 2002, 201 - 206
 
Roman A. Zubarev, Kim F. Haselmann, Bogdan A. Budnik, Frank Kjeldsen and Frank Jensen
"Towards an understanding of the mechanism of electron-capture dissociation: a historical perspective and modern ideas"
Eur. J. Mass Spectrom., 8, 337 - 349, 2002
 
Bogdan A. Budnik, Michael L. Nielsen, Jesper V. Olsen, Kim F. Haselmann, Patrick Hörth, Wolfgang haehnel and Roman A. Zubarev
"Can relative cleavage frequencies in peptides provide additional sequence information?"
Int. J. Mass Spectrom., 219, 283 - 294, 2002
 
Hanna Niiranen, Bogdan A. Budnik, Roman A. Zubarev, Seppo Auriola and Seppo Lapinjoki
"High-performance liquid chromatography - mass spectrometry and electron - capture dissociation tandem mass spectrometry of osteocalcin. Determination of γ-carboxyglutamic acid residues"
Journal of Chromatography A, 962, 2002, 95 - 103
 
Youri O. Tsybin, Per Håkansson, Bogdan A. Budnik, Kim F. Haselmann, Frank Kjeldsen, Michael Gorshkov and Roman A. Zubarev
"Improved low-energy electron injection systems for high rate electron capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry"
Rapid Commun. Mass Spectrom., 15, 1849 - 1854, 2002
 
Kim F. Haselmann, Thomas J.D. Jørgensen, Bogdan A. Budnik, Frank Jensen and Roman A. Zubarev
"Electron capture dissociation of weakly bound polypeptide polycationic complexes"
Rapid Commun. Mass Spectrom., 16, 2260 - 2265, 2002
 
Kim F. Haselmann, Bogdan A. Budnik, Frank Kjeldsen, Nick Polfer and Roman A. Zubarev
"Can the (M•-X) region in electron capture dissociation provide reliable information on amino acid composition of polypeptides?"
Eur. J. Mass Spectrom., 8, 461 - 469, 2002
 
Kim F. Haselmann, Bogdan A. Budnik, Frank Kjeldsen, Michael L. Nielsen, Jesper V. Olsen and Roman A. Zubarev
"Electronic excitation gives informative fragmentation of polypeptide cations and anions"
Eur. J. Mass Spectrom., 8, 117 - 121, 2002
 
Bogdan A. Budnik, Kim F. Haselmann and Roman A. Zubarev
"Electron detachment dissociation of peptide di-anions: an electron-hole recombinant phenomenon"
Chem. Phys. Lett., 342, 2001, 299 - 302
 
Jesper V. Olsen, Kim F. Haselmann, Michael L. Nielsen, Bogdan A. Budnik, Peter E. Nielsen and Roman A. Zubarev
"Comparison of electron capture dissociation and collisionally activated dissociation of polycations of petide nucleic acids"
Rapic Commun. Mass Spectrom., 15, 969 - 974, 2001
 
Kim F. Haselmann, Bogdan A. Budnik. Jesper V. Olsen, Michael L. Nielsen, Celso A. Reis, Henrik Clausen, Anders H. Johnsen and Roman A. Zubarev
"Advantages of External Accumulation for Electron Capture Dissociation in Fourier Transform Mass Spectrometry"
Anal. Chem, 2001, 73, 2998 - 3005
 
Michael L. Nielsen, Bogdan A. Budnik, Kim F. Haselmann, Jesper V. Olsen and Roman A. Zubarev
"Intramolecular hydrogen atom transfer in hydrogen-deficient polypeptide radical cations"
Chem Phys. Lett., 330, 2000, 558 - 562
 
Kim F. Haselmann, Bogdan A. Budnik and Roman A. Zubarev
"Electron capture dissociation of b2+ peptide fragments reveals the presence of the acylium ion structure"
Rapid Commun. Mass Spectrom., 14, 2242 - 2246, 2000
 
Allan Stensballe, Ole N. Jensen, Jesper V. Olsen, Kim F. Haselmann and Roman A. Zubarev
"Electron capture dissociation of singly and multiply phosphorylated peptides"
Rapid Commun. Mass Spectrom., 14, 1793 - 1800, 2000
 
Roman A. Zubarev, Michael L. Nielsen and Bogdan A. Budnik
"Tandem ionization mass spectrometry of biomolecules"
Eur. J. Mass. Spectrom., 6, 235-240, 2000
 
Ekaterina Migorodskaya, Peter Roepstorff and Roman A. Zubarev
"Localization of O-Glycosylation Sites in Peptides by Electron Capture Dissociation in a Fourier Transform Mass Spectrometer"
Anal. Chem, 1999, 71, 4431 - 4436