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LTQ FT Ultra Bibliography

Bibliography

The following bibliography lists some recent applications
of the LTQ FT Ultra,
divided into the areas of proteomics, pharmaceuticals, and instrument technology.

Proteomics / peptides / proteins
Pharma / Small Molecules
Technical

Proteomics / peptides / proteins

Molecular-level description of proteins from
Saccharomyces cerevisiae using quadrupole FT hybrid
mass spectrometry for top down proteomics

Meng, F., Du, Y., Miller, L.M., Patrie, S.M., Robinson, D.E., Kelleher, N.L.(*)
Dept. Chem., University Illinois at Urbana-Champaign, Urbana, IL 61801, USA
Anal. Chem. 76(10) 2852-2858 2004 LTQ FT

Tyrosine phosphoproteomics of FGF signaling – a role for insulin receptor substrate-4
Hinsby, A.M.(1), Olsen, J.V.(2), Mann, M.(*2)
(1) Protein Lab., Panum Inst. 6.1, Blegdamsvej 3C, Univ. Copenhagen, DK-2200, (2) Cent. Exptl. Bioinformatics, Dept. Biochem. Mol. Biol., Campusvej 55, Univ. Southern Denmark, Odense M, Denmark J. Biol. Chem. 279 in press 2004
De novo sequencing, peptide composition analysis, and composition-based sequencing: a new strategy employing accurate mass determination by Fourier transform ion cyclotron resonance mass spectrometry
Spengler, B.
Inst. Inorg. Anal. Chem., Justus Liebig Univ. Giessen, Giessen, Germany J. Am. Soc. Mass Spectrom. 15(5) 703-714 2004
Proteomic analysis of ductal carcinoma of the breast using laser capture microdissection, LC-MS, and 16O/18O isotopic labeling
Zang, L.(1), Toy, D.P.(2), Hancock, W.S.(1), Sgroi, D.C.(3), Karger, B.L.(*1)
(1) Barnett Inst. & Dept. Chem., Northeastern Univ., 341 Mugar Bldg., 360 Huntington Ave., Boston, MA 02115, (2) Dept. Pathol., (3) Renal Unit, Dept. Med., Massachusetts Gen. Hosp., Boston, MA 02114, USA J. Protein Res. 3(3) 604-612 2004
Novel linear quadrupole ion trap/FT mass spectrometer: performance characterization and use in the comparative analysis of histone H3 post-translational modifications
Syka, J.E.P.(1), Marto, J.A.(2), Bai, D.L.(2), Horning, S.(5), Senko, M.W.(4), Schwartz, J.C.(4), Ueberheide, B.(2), Garcia, B.(2), Busby, S.(2), Muratore, T.(2), Shabanowitz, J.(2), Hunt, D.F.(*2,3)
(1) Eng. Physics Program, (2) Dept. Chem., (3) Dept. Pathol., Health Sci. Cent., Univ. Virginia, Charlottesville, VA 22901, (4) Thermo Electron Corp., San Jose, CA 95134, USA, (5) Thermo Electron Corporation, Bremen, Germany J. Protein Res. 3(3) 621-626 2004
Nucleolar proteome dynamics
Jens S. Andersen(1)†, Yun W. Lam(2)†, Anthony K.L. Leung (2)*, Shao-En Ong(1), Carol E. Lyon(2), Angus I. Lamond(2) and Matthias Mann(1)
(1) Dept. of Biochemistry and Molecular Biology, Campusvej 55, DK-5230 Odense M, Denmark (2) Wellcome Trust Biocentre, MSI/WTB Complex, Univ. of Dundee, Dundee DD1 4HN, UK *Present address: Center for Cancer Research, Dept. of Biology, MIT, Cambridge, MA 02139, USA †These authors contributed equally to this work Nature 433(7021) 77-83 2005
O-Sulfonation of serine and threonine. Mass spectrometric detection and characterization of a new posttranslational modification in diverse proteins throughout the eukaryotes
Medzihradszky, K.F.(1), Darula, Z.(1), Perlson, E.(5), Fainzilber, M.(5), Chalkley, R.J.(1), Ball, H.(2), Greenbaum, D.(3), Bogyo, M.(3), Tyson, D.R.(4), Bradshaw, R.A.(4), Burlingame, A.L.(*1)
(1) Dept. Pharm. Chem. & Mass Spectrom. Facility, (2) Inst. Neurosci. (3) Dept. Biochem. Biophys., University of California, San Francisco, CA 94143, (4) Dept. Physiol. Biophys., University of California, Irvine, CA 92697, USA (5) Dept. Biol. Chem., Weizmann Inst. Sci., Rehovot 76100, Israel Mol. Cell. Proteomics 3(5) 429-440 2004
Improved peptide identification in proteomics by two consecutive stages of mass spectrometric fragmentation
Olsen, J.V., Mann. M.(*)
Cent. Exptl. BioInformatics, Dept. Biochem. Mol. Biol., University Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark Proc. Natl. Acad. Sci. USA 101(37) 13417-13422 2004
Trypsin cleaves exclusively C-terminal to arginine and lysine residues
Olsen, J.V., Ong, S.E., Mann, M.(*)
Cent. Exptl. BioInformatics, Dept. Biochem. Mol. Biol., University Southern Denmark, Campusvej 55, DK-5230 Odense M, Denmark Mol. Cell. Proteomics 3(6) 608-614 2004
Characterization of Tetrahymena histone H2B variants and posttranslational populations by electron capture dissociation (ECD) Fourier transform ion cyclotron mass spectrometry (FT-ICR MS)
Medzihradszky, K.F.(1), Zhang, X.(1), Chalkley, R.J.(1), Guan, S.(1), McFarland, M.A.(2), Chalmers, M.J.(2), Marshall, A.G.(2), Diaz, R.L.(3), Allis, C.D.(3), Burlingame, A.L.(*1)
(1) Dept. Pharm. Chem. & Mass Spectrom. Facility, University of California, San Francisco, CA 94143-0446, (2) Ion Cyclotron Resonance Program, Natl. High Magnetic Field Lab., Florida State Univ., Tallahassee, FL 32310-3706, (3) Lab. Chromatin Biol., Rockefeller Univ., New York, NY 10021, USA Mol. Cell. Proteomics 3(9) 872-886 2004
A new and sensitive on-line liquid chromatography/mass spectrometric approach for top-down protein analysis: the comprehensive analysis of human growth hormone in an E. coli lysate using a hybrid linear ion trap/Fourier transform ion cyclotron resonance mass spectrometer
Wu, S.-L.(1), Jardine, I.(2), Hancock, W.S.(1), Karger, B.L.(*1)
(1) Barnett Inst., Northeastern Univ., Boston, MA 02115, (2) Thermo Electron, San Jose, CA 95134, USA Rapid Commun. Mass Spectrom. 18(19) 2004 2201-2207
Simultaneous proteomic analysis of multiple organelles by peptide correlation profiling
Foster, L.J., Olsen, J.V., Mortensen, P., Mann, M.
Univ. Southern Denmark, Odense, Denmark Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MOAam 10.55, Oral
Discovery of novel endogenous neuropeptides using linear trap FT-ICR MSMS
Skold, K.(1), Svensson, M.(1), Chelius, D.(2), Svenningsson, P.(3), Andren, P.E.(1)
(1) Lab. Biol. Med. Mass Spectrom., Uppsala, Sweden, (2) Thermo Electron Corp., San Jose, CA 95143, USA, (3) Karolinska Inst., Stockholm, Sweden Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MPP 252, Poster
Combining proteomics, peptidomics and MALDI imaging for the investigation of the pathophysiology of experimental Parkinson’s disease
Andren, P.E.(1), Svensson, M.(1), Sköld, K.(1), Nilsson, A.(1), Nordvarg, H.(2), Svenningsson, P.(3)
(1) Uppsala Univ., Uppsala, (2) Amersham Biosciences, Uppsala, (3) Karolinska Inst., Stockholm, Sweden Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, WOBpm 03:20, Oral
Differential expression of histone post-translational modi- fications in the MRL-LPR/LPR murine model of lupus: potential initial mechanism regulating renal failure
Garcia, B.A.(1), Busby, S.A.(1), Shabanowitz, J.(1), Mishra, N.(2), Hunt, D.F.(1)
(1) Univ. Virginia, Charlottesville, VA, (2) Wake Forest Univ. Sch. Med., Winston-Salem, NC, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MPU 399, Poster
Simultaneous acquisition of two ion signals using two detectors in a hybrid ion trap/Fourier transform ICR mass spectrometer
Horning, S.R., Lange, O., Wieghaus, A., Malek, R., Senko, M.W.
Thermo Electron Corporation, Bremen, Germany Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThOBam 11.55, Oral
Electron capture dissociation and infrared multiphoton dissociation FTICR-MS under liquid chromatography conditions
Malek, R., Horning, S.R., Muenster, H., Metelmann-Strupat, W.
Thermo Electron Corporation, Bremen, Germany Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MPV 419, Poster
Isotope dilution proteomics in a hybrid linear ion-trap/FTICR mass spectrometer (LTQ FT): a new platform for differential display biology
Gerber, S.A.(1), Elias, J.E.(1), Gartner, C.G.(1), Kirkpatrick, D.S.(1), Ballif, B.(1), Rush, J.(2), Haas, W.(1), Gygi, S.P.(1)
(1) Harvard Med. Sch., Boston, MA, (2) Cell Signaling Technol., Beverly, MA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MPX 464, Poster
Systematic profiling of peptide-protein interactions of phosphotyrosine motifs using the LTQ FT-ICR mass spectrometer
Schulze, W., Olsen, J., Deng, L., Mann, M.
Univ. S. Denmark, Odense, Denmark Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPX 449, Poster
Accurate mass SEQUEST searches with data from a hybrid linear ion-trap/Fourier transform mass spectrometer
Senko, M., Zabrouskov, V., Shofstahl, J., Barkovich, R.
Thermo Electron Corp., San Jose, CA 95143, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPA 002, Poster
Quantitative and temporal profiling of acutely-induced phosphorylation events using selective isotope labeling and a hybrid LTQ FT mass spectrometer
Ballif, B.A., Bakalarski, C.E., Gerber, S.A., Roux, P., Blenis, J., Gygi,
S.P. Harvard Med. Sch., Boston, MA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPQ 322, Poster
Identification of S-nitrosylated cysteines
Ueberheide, B.U., Shabanowitz, J., Hunt, D.F.
Univ. Virginia, Charlottesville, VA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPZ 480, Poster
High accuracy mass analysis on a Finnigan LTQ FT for peptide composition analysis and composition based sequencing
Spengler, B.
Justus Liebig Univ., Giessen, Germany Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, WPS 343, Poster
Phosphopeptide detection by a Data-Dependent, neutral-loss driven MS3 scan
Beausoleil, S.A., Villen, J., Gerber, S.A., Jedrychowski, M., Tomaino, R., Gygi, S.P.
Harvard Med. Sch., Boston, MA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, WPU 387, Poster
80 Da modification of protein serine and threonine residues: not always phosphate!
Medzihradszky, K.F., Chalkley, R.C., Burlingame, A.L.
UCSF, San Francisco, CA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPN 258, Poster
Characterization of novel post-translational modifications on several isoforms of histone H1 from HeLa cells
Busby, S.A., Garcia, B.A., Shabanowitz, J., Hunt, D.F.
Univ. Virginia, Charlottesville, VA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPN 276, Poster
Measurement of protein mole ratios and atomic enrichment from a single high resolution measurement of an unlabeled and labeled peptide
MacCoss, M.J.(1), Wu, C.C.(2),. Matthews, D.E.(3), Yates, J.R., III(2)
(1) Univ. Washington, Seattle, WA, (2) Scripps Res. Inst., La Jolla, CA, (3) Univ. Vermont, Burlington, VT, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPO 293, Poster
Autosampler-based protein identification from silver stained gels by high sensitivity, high throughput hybrid linear ion trap-Fourier transform mass spectrometry (LTQ FT)
Faherty, B.K., Tomaino, R.M., Gerber, S.A., Shi, Y., Gygi, S.P.
Harvard Med. Sch., Boston, MA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPW 473, Poster
An integrated LC-MS platform - LTQ FT for rapid and precise identification of proteins and their post-translational modifications
Wu, S.-L.(1), Metelmann-Strupat, W.(2), Muenster, H.(2)
(1) Thermo Electron Corp., San Jose, CA 95134, USA, (2) Thermo Electron Corporation, Bremen, Germany Proc. 2004 Pittsburgh Conf., Chicago, IL, Mar 7-12 2004, 2600-300, Oral
New approaches to the detection of glycoprotein biomarkers from human plasma using capillary LC with high resolution accurate mass spectrometry
Wu, S.-L., Hancock, W.S., Yang, Z., Zhang, J., Cao, L., Karger, B.L.
Northeastern Univ., Boston, MA, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPR 338, Poster
A preparative and analytical mass spectrometer for production of protein microarrays by ion soft-landing
Blake, T.A., Cooks, R.G., Guymon, A.J., Ouyang, Z., Takats, Z.
Dept. Chem., Purdue Univ., 560 Oval Dr., West Lafayette, IN 47907, USA Proc. 2004 Pittsburgh Conf., Chicago, IL, Mar 7-12 2004, 12700-100P, Poster
Exclusive trypsin specificity determined by nanoLC-FTICR-MS/MS
Olsen, J.V., Ong, S.-E., Mann, M.
Cent. Experim. BioInformatics, Odense, Denmark Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPS 366, Poster
Structure elucidation of structural proteins from Yersinia phages using MALDI-TOF and ESI-FTMS data
Beck, S.(1), Strauch, E.(2), Hertwig, S.(2), Klein, I.(2), Konietzny, A.(2), Appel, B.(2), Wieghaus, A.(3), Metelmann-Strupat, W.(3), Griep-Raming, J.(3), Linscheid, M.W.(*1)
(1) Humboldt Univ. Berlin, (2) Robert Koch Inst., Berlin, (3) Thermo Electron Corp., Bremen, Germany Proc. 51st ASMS Conf., Montreal, June 8-12, 2003, MPX 457, Poster
Improving Protein Identification Using Complementary Fragmentation Techniques in Fourier Transform Mass Spectrometry
Michael L. Nielsen, Mikhail M. Savitski and Roman A. Zubarev
Laboratory for Biological and Medical Mass Spectrometry, Uppsala University, S-75123 Uppsala, Sweden
Webpage
Distinguishing and Quantifying Peptides and Proteins Containing D-Amino Acids by Tandem Mass Spectrometry
Christopher M. Adams* and Roman A. Zubarev
Laboratory for Biological and Medical Mass Spectrometry, Uppsala University, Sweden
Note: Racemization is thought to play an important role in aging and aging diseases
Webpage
Proteomics-Grade de Novo Sequencing Approach
Mikhail M. Savitski, Michael L. Nielsen, Frank Kjeldsen, and Roman A. Zubarev
Laboratory for Biological and Medical Mass Spectrometry, Uppsala University, Uppsala, Sweden
Note: Hot ECD can be used to differentiate Leu and Ile (apps note in progress)
Webpage
Extended Range Proteomic Analysis (ERPA): a new and sensitive LC-MS platform for high sequence coverage of complex proteins with extensive post-translational modifications-comprehensive analysis of beta-casein and epidermal growth factor receptor (EGFR).
Wu SL, Kim J, Hancock WS, Karger B.
Barnett Institute and Department of Chemistry, Northeastern University, Boston, MA 02115, USA.
Webpage
Increased Coverage in the Transmembrane Domain with Activated Ion ECD for Top-down FTMS of Integral Membrane Proteins
Vlad Zabrouskov et al and Julian P. Whitelegge
UCLA
Bottom-up Label-Free HT Differential Analysis of Human Plasma Using an Integrated Fractionation/nanoESI Device Coupled with LC-FTMS Detection
Jennifer. N Sutton(1), C. Ptak(2), M. Azkenasi(1), L. Bonilla(1)
(1)Thermo Biomarker Research Initiatives in Mass Spectrometry (BRIMS) Center, Thermo Electron Corporation, Cambridge, MA; (2) Advion Bioscience, Ithaca, NY USA. Poster PDF
18O Labeling and Protein AQUA: Combined Isotopic Labeling Stratengies for the Evaluation of Protein response to Hydrogen Peroxide Induced Oxidative Stress
Beth K. Radwanski(1), Roger Biringer(2), Justin Wildsmith(1), John G. Dapron(1), Jeffrey J. Porter(1), Graham B.I Scott(1), Andreas F.R. Hühmer(2)
(1) Sigma-Aldrich Biotechnology, St. Louis, MO; (2) Thermo Electron Corporation, San Jose, CA USA Poster PDF
Unfolding of Intact Ubiquitin in the Gas Phase by IRMPD and Fragmentation with ECD
Martin Zeller, Bernard Delanghe and Helmut Muenster;
Thermo Electron Corporation, Bremen, Germany AFR for LTQ FT Ultra
 

Pharma / Small Molecules    back to top

Deuterium back-exchange in the electrospray source
Clemens, M., Taylor, K.W., Winger, B.E.
Eli Lilly & Co., Indianapolis, IN, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, MPH 099, Poster
A fully automated process for determining compound integrity and building accurate mass MS/MS libraries
Josephs, J.L.(1,2), Shipkova, P.(1,2), Langish, R.A.(1,2), Sanders, M.(1,2)
(1) Bristol-Myers Squibb, Hopewell, NJ, (2) Bristol-Myers Squibb, Princeton, NJ, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPF 113, Poster
Use of a hybrid linear ion trap/Fourier transform mass spectrometer for determining metabolic stability and metabolite characterization
Shipkova, P., Josephs, J., Grubb, M., Chen, W., Sanders, M. Bristol-Myers Squibb
Princeton, NJ, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPM 227, Poster
Use of automated nanoelectrospray for drug metabolite structure elucidation
Borts, D.J., Cook, S.T., Bowers, G.D., O'Mara, M.J., Quinn, K.E.
GlaxoSmithKline, Research Triangle Park, NC, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPM 247, Poster
Application of LTQ FT MS to metabonomic profiling
Warrack, B.M.(1,2), Hnatyshyn, S.(1,2), Ott, K.-H.(1,2), Ray, K.(1,2), Tymiak, A.(1,2), Zhang, H.(1,2), Sanders, M.(1,2)
(1) Bristol-Myers Squibb PRI, Princeton, NJ, (2) Bristol-Myers Squibb PRI, Hopewell, NJ, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, ThPX 505, Poster
Performing metabolite identification of verapamil incubations on the chromatographic time-scale using a hybrid Fourier transform mass spectrometer
Duczak, N., Peterman, S., Kagan, M., Mullholland, J., Muenster, H., Horning, S.
Thermo Electron Corp., Somerset, NJ, USA Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TPM 262, Poster
Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry: a rapid method for metabolite identification
Wu, B.(1), Griep-Raming, J.(2), Jacob, P., III(2), Muenster, H.(2)
(1) Thermo Electron Corp., San Jose, CA 95134, USA, (2) Thermo Electron Corporation, Bremen, Germany Proc. 2004 Pittsburgh Conf., Chicago, IL, Mar 7-12 2004, 12400-400, Oral
Fragmentation pathways of cisplatin adducts to dinucleotides determined by FT-ICR-MS
Hagemeister, T.(1), Wieghaus, A.(2), Metelmann-Strupat, W.(2), Griep-Raming, J.(2), Linscheid, M.W.(1)
(1) Dept. Chem., Humboldt Univ. Berlin, Germany, (2) Thermo Electron Corp., Bremen, Germany Proc. 51st ASMS Conf., Montreal, June 8-12, 2003, MPI 190, Poster
Detection and characterization of pharmaceutical metabolites, degradants and impurities by the application of MS/MS software algorithms
Josephs, J.L.(*1), Sanders, M.(2), Shipkova, P.(1), Langish, R.A.(1), Whitney, J.(3), Phillips, J.J.(4)
(1) Bristol-Myers Squibb, Hopewell, NJ, (2) Bristol-Myers Squibb, Princeton, NJ, (3) Novatia, Plainsboro, NJ, (4) Thermo Electron Corp., San Jose, CA 95134, USA Proc. 51st ASMS Conf., Montreal, June 8-12, 2003, ThPF1 068, Poster
 

Technical    back to top

LC/MS with external calibration mass accuracies approaching 100 ppb
Senko, M.W.(1), Zabrouskov, V.(1), Lange, O.(2), Wieghaus, A.(2), Griep-Raming, J.(2), Horning, S.(2)
(1) Thermo Electron Corp., San Jose, CA 95143, USA, (2) Thermo Electron Corporation, Bremen, Germany Proc. 52nd ASMS Conf., Nashville, TN, May 23-27, 2004, TOCam 10.55, Oral
Operation of a linear quadrupole ion trap mass spectrometer under high space charge conditions
Senko, M.W.(1), Schwartz, J.C.(1), Wieghaus, A.(2)
(1) Thermo Electron Corp., San Jose, CA 95134, USA, (2) Thermo Electron Corporation, Bremen, Germany Proc. 51st ASMS Conf., Montreal, June 8-12, 2003, WPH 154, Poster
A hybrid two-dimensional quadrupole ion trap/Fourier transform ion cyclotron mass spectrometer: accurate mass and high resolution at a chromatography timescale
Horning, S.(1), Malek, R.(1), 1, Wieghaus, A.(1), Senko, M.W.(2), Syka, J.E.P.(2)
(1) Thermo Electron Corporation, Bremen, Germany, (2) Thermo Electron Corp., San Jose, CA 95134, USA Proc. 51st ASMS Conf., Montreal, June 8-12, 2003, TOAam 11.55, Oral
Split SIEVE: Informatic Support for Differential Split LC-FTMS Experiments
M. Askenazi(1), J. Sutton1, L. Bonilla(1), C. Ptak(2),. F. M. Maroto(3)
(1)Thermo BRIMS Center Cambridge, MA, USA; (2)Advion Bioscience, Ithaca, NY, USA; (3)Thermo Electron Corp., San Jose, CA, USAPoster PDF
A Method to Align Three - Dimensional Chromatographic Profiles of LC/MS Experiments Rovchan G. Sadygov(1), Fernando Martin Maroto(1), Manor Azkenazi(2), Leo E. Bonilla(2), Andreas F.R. Hühmer(1)
Thermo Electron Corporation (1) San Jose, CA; (2) Boston, MA USA
Poster PDF