Calculation of the Isotope Cluster for Polypeptides by Probability Grouping

Journal of the American Society for Mass Spectrometry

Volumn 20, Issue 2, 2009, Pages 295-302

  Olson, Matthew T ^a,b   Yergey, Alfred L ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

^b DEPARTMENT OF PATHOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FINE STRUCTURES; FUNDAMENTAL DIFFERENCES; ISOTOPIC SPECIES; MOLECULAR WEIGHT POLYPEPTIDES;

PROBABILITY; RANDOM PROCESSES;

ISOTOPES;

ALGORITHMS; ANIMALS; CLUSTER ANALYSIS; COMPUTER SIMULATION; DYNEIN ATPASE; HUMANS; ISOTOPES; NEUTRONS; PEPTIDES; PROBABILITY;

EID: 58249083150     PISSN: 10440305     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jasms.2008.10.007     Document Type: Article

References (27)

1. Zubarev R.A., Demirev P.A., Hakansson P., and Sundqvist B.U.R. Approaches and Limits for Accurate Mass Characterization of Large Biomolecules. Anal. Chem 67 20 (1995) 3793-3798
2. Blank P.S., Sjomeling C.M., Backlund P.S., and Yergey A.L. Use of Cumulative Distribution Functions to Characterize Mass Spectra of Intact Proteins. J. Am. Soc. Mass Spectrom 13 1 (2002) 40-46
3. Havilio M., Haddad Y., and Smilansky Z. Intensity-Based Statistical Scorer for Tandem Mass Spectrometry. Anal. Chem 75 3 (2003) 435-444
4. Spellman D.S., Deinhardt K., Darie C.C., Chao M.V., and Neubert T.A. Stable Isotopic Labeling by Amino Acids in Cultured Primary Neurons: Application to Brain-Derived Neurotrophic Factor-Dependent Phosphotyrosine-Associated Signaling. Mol. Cell. Proteom 7 6 (2008) 1067-1076
5. Connor E.C., Rott A.S., Zeder M., Juttner F., and Dorn S. C-13-Labeling Patterns of Green Leaf Volatiles Indicating Different Dynamics of Precursors in Brassica Leaves. Phytochemistry 69 6 (2008) 1304-1312
6. Xiao G.G., Garg M., Lim S., Wong D., Go V.L., and Lee W.N.P. Determination of Protein Synthesis in Vivo Using Labeling from Deuterated Water and Analysis of MALDI-TOF Spectrum. J. App. Physiol 104 3 (2008) 828-836
7. Suzuki H., Sasaki R., Ogata Y., Nakamura Y., Sakurai N., Kitajima M., Takayama H., Kanaya S., Aoki K., Shibata D., and Saito K. Metabolic Profiling of Flavonoids in Lotus japonicus Using Liquid Chromatography Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. Phytochemistry 69 1 (2008) 99-111
8. Pascal B.D., Chalmers M.J., Busby S.A., Mader C.C., Southern M.R., Tsinoremas N.F., and Griffin P.R. The Deuterator: Software for the Determination of Backbone Amide Deuterium Levels from H/D Exchange MS Data. BMC Bioinformatics 8 (2007) 156-167
9. Hotchko M., Anand G.S., Komives E.A., and Ten Eyck L.F. Automated Extraction of Backbone Deuteration Levels from Amide H/(2) H Mass Spectrometry Experiments. Protein Sci 15 3 (2006) 583-601
10. Snijders A.P.L., de Koning B., and Wright P.C. Perturbation and Interpretation of Nitrogen Isotope Distribution Patterns in Proteomics. J. Proteome Res 4 6 (2005) 2185-2191
11. Zhang X.M., Hines W., Adamec J., Asara J.M., Naylor S., and Regnier F.E. An Automated Method for the Analysis of Stable Isotope Labeling Data in Proteomics. J. Am. Soc. Mass Spectrom 16 7 (2005) 1181-1191
12. Johnson K.L., and Muddiman D.C. A Method for Calculating O-16/O-18 Peptide Ion Ratios. J. Am. Soc. Mass Spectrom 15 4 (2004) 437-445
13. Rockwood A.L., Van Orman J.R., and Dearden D.V. Isotopic Compositions and Accurate Masses of Single Isotopic Peaks. J. Am. Soc. Mass Spectrom 15 1 (2004) 12-21
14. Prebyl B.S., and Cook K.D. Use of Fourier Transform for Deconvolution of the Unresolved Envelope Observed in Electrospray Ionization Mass Spectrometry of Strongly Ionic Synthetic Polymers. Anal. Chem 76 (2004) 127-136
15. Valkenborg D., Jansen I., and Burzykowski T. A Model-Based Method for the Prediction of the Isotopic Distribution of Peptides. J. Am. Soc. Mass Spectrom 19 5 (2008) 703-712
16. Aizikov K., and O'Connor P.B. Use of the Filter Diagonalization Method in the Study of Space Charge Related Frequency Modulation in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. J. Am. Soc. Mass Spectrom 17 6 (2006) 836-843
17. Maleknia S.D., and Downard K.M. Charge Ratio Analysis Method to Interpret High Resolution Electrospray Fourier Transform-Ion Cyclotron Resonance Mass Spectra. Int. J. Mass Spectrom 246 1{plus 45 degree rule}3 (2005) 1-9
18. Meija J., and Caruso J.A. Deconvolution of Isobaric Interferences in Mass Spectra. J. Am. Soc. Mass Spectrom 15 5 (2004) 654-658
19. Fernandez-de-Cossio J., Gonzalez L.J., Satomi Y., Betancourt L., Ramos Y., Huerta V., Amaro A., Besada V., Padron G., Minamino N., and Takao T. Isotopica: A Tool for the Calculation and Viewing of Complex Isotopic Envelopes. Nucleic Acids Res 32 (2004) W674-W678
20. Roussis S.G., and Proulx R. Reduction of Chemical Formulas from the Isotopic Peak Distributions of High-Resolution Mass Spectra. Anal. Chem 75 6 (2003) 1470-1482
21. Horn D.M., Zubarev R.A., and McLafferty F.W. Automated Reduction and Interpretation of High Resolution Electrospray Mass Spectra of Large Molecules. J. Am. Soc. Mass Spectrom 11 4 (2000) 320-332
22. Datta B.P. Polynomial Method of Molecular Isotopic Abundance Calculations: A Computational Note. Rapid Commun. Mass Spectrom 11 16 (1997) 1767-1774
23. Yergey J.A. A General Approach to Calculating Isotopic Distributions for Mass-Spectrometry. Int. J. Mass Spectrom 52 (1983) 337-349
24. Hsu C.S. Diophantine Approach to Isotopic Abundance Calculations. Anal. Chem 56 8 (1984) 1356-1361
25. Kubinyi H. Calculation of Isotope Distributions in Mass Spectrometry. A Trivial Solution for a Non-Trivial Problem. Anal. Chim. Acta 247 (1991) 107-119
26. Snider R.K. Efficient Calculation of Exact Mass Isotopic Distributions. J. Am. Soc. Mass Spectrom 18 8 (2007) 1511-1515
27. n. J. Am. Soc. Mass Spectrom 14 4 (2003) 311-322