Radiant energy – Ionic separation or analysis – Methods
Reexamination Certificate
2005-09-06
2005-09-06
Wells, Nikita (Department: 2881)
Radiant energy
Ionic separation or analysis
Methods
C290S017000, C290S017000, C290S017000, C382S128000, C382S129000
Reexamination Certificate
active
06940065
ABSTRACT:
In various embodiments, the methods for analyzing a sample are provided utilizing a result dependent acquisition strategy. In various embodiments, methods for analyzing a sample are provided wherein the sample is first analyzed by MALDI and MS to produce a first result that is then used to determine a second analysis that is used to analyze the sample again by MALDI and MS/MS or MSnto produce a second result.
REFERENCES:
patent: 5625184 (1997-04-01), Vestal et al.
patent: 6064754 (2000-05-01), Parekh et al.
patent: 6278794 (2001-08-01), Parekh et al.
patent: 6329146 (2001-12-01), Crooke et al.
patent: 2002/0001814 (2002-01-01), Chu et al.
patent: 1 006 559 (2000-07-01), None
patent: WO 02/21139 (2002-03-01), None
patent: WO 02/061047 (2002-08-01), None
patent: WO 02/061047 (2002-08-01), None
Aebersold R, Goodlett DR, Mass spectrometry in proteomics,Chem. Rev.Feb. 2001; 101:269-295.
Berger S.J., Lee S.W., Anderson G.A., Pasa-Tolic L., et al.,Anal. Chem.2002, 74: 4994-5000.
Bergholz A., Heymann S., Schenk J. A, Freytag J. C.,Acta Biotheor.2001, 49: 145-159.
Bhattacharya A., Czaplinski K., Trifillis P., He F., et al.,RNA 2000, 6: 1226-1235.
Bienvenut W.V., Deon C., Pasquarello C., Campbell J.M., et al.,Proteomics2002, 2: 868-876.
Chakravarti D. N., Chakravarti B., Moutsatsos I.,Biotechniques. 2002,Computational Proteomics Supplement32: S4-S15.
Coghlan A., Wolfe K.H.,Yeast2000, 16: 1131-1145.
Creasy D.M., and Cottrell J.S.,Proteomics2002, 2: 1426-1434.
Dongre A.R., Eng J.K., Yates J.R. 3rd.,Trends Biotechnol.1997, 15: 418-445.
Ducret A, Van Oostveen I, Eng JK, Yates JR 3rd, Aebersold R. Links:Protein Sci.1998; 7: 706-719.
Dwight S.S., Harris M.A., Dolinski K., Ball C.A., et al.,Nucleic Acids Research2002, 30: 69-72.
Foret F, Muller O, Thorne J, Gotzinger W, et al.,J. Chromatogr A1995, 716: 157-166.
Forster J., Gombert A.K., Nielsen J.,Biotechnol. Bioeng.2002, 79: 703-712.
Futcher B, Latter GI, Monardo P, McLaughlin CS, et. al.,Mol. Cell Biol.1999, 19: 7357-7368.
Griffin T.J., Gygi S.P., Ideker T., Rist B., et al.,Mol. Cell. Proteomics2002, 1: 323-333.
Griffin T.J., Han D.K., Gygi S.P., Rist B., et al.,J. Am. Soc. Mass Spectrom.2001, 12: 1238-1246.
Griffin TJ, Goodlett DR, Aebersold R,Curr. Opin. Biotechnol.2001, 12: 607-612.
Gygi S.P., Rist B., Gerber S.A., Turecek F., et al.,Nat. Biotechnol.1999, 17: 994-999.
Gygi SP, Rist B, Griffin TJ, Eng J, et al.,J. Proteome Res.2002, 1: 47-54.
Han D.K., Eng J., Zhou H., and Aebersold R.,Nat Biotechnol.2002, 19: 946-951.
Hansen KC, Schmitt-Ulms G, Chalkley RJ, Hirsch J, Baldwin MA, et. al.,Mol. Cell. Proteomics2003, 2.5: 299-314.
He F., Brown A.H., and Jacobson A.,Mol. Cell. Biol.1997, 17: 1580-1594.
Ideker T., Thorsson V., Ranish J.A., Christmas R., et al.,Science. 2001, 292: 929-934.
Johnson RS, Taylor JA.Mol. Biotechnol.2002, 22: 301-315.
Keller A, Nesvizhskii Al, Kolker E, Aebersold R,Anal. Chem.2002; 74:5383-5392.
Kinney D.M., Lusty C.J.,Mol. Cell. Biol.1989, 9: 4882-4888.
Liu H., Lin D., Yates J.R. 3rd.,Biotechniques2002, 32: 898-902.
Mann M., and Wilm M.,Anal. Chem.1994, 66: 4390-4399.
Maquat L.E.Curr. Biol.2002, 12: R196-R197.
Messenguy F., Vierendeels F., Pierard A., Delbecq P.,Curr. Gnet.2002, 41: 224-231.
Mortz E., Vorm O., Mann M., Roepstorff P.,Biol. Mass Spectrom.1994, 23: 249-261.
Parker K.C.,J Am Soc Mass Spectrom.2002; 13:22-39.
Paton N.W., Khan S.A., Hayes A., Moussouni F., et al.,Bioinformatics16: 548-557.
Perkins D.N., Pappin D.J., Creasy D.M., and Cottrell J.S.,Electrophoresis1999, 20: 3551-3567.
Sharp P.M, Li W.H.,Nucleic Acids Res.1987; 15: 1281-1295.
Shevchenko A, Chernushevich I, Ens W, Standing KG, et al.,Rapid Commun. Mass Spectrom.1997;11: 1015-1024.
Shevchenko A., Sunyaev S., Loboda A., Shevchenko A., et al.,Anal. Chem.2001, 73: 1917-1926.
Takao T, Gonzalez J, Yoshidome K, Sato K, et. al.,Anal. Chem.1993, 65: 2394-2399.
Wait R., Miller I., Eberini I., Cairoli F., et al.,Electrophoresis2002, 23: 3418-3427.
Wattenberg A, Organ AJ, Schneider K, Tyldesley R, et al.,J. Am. Soc. Mass Spectrom.2002, 13: 772-783.
Wolters D.A., Washburn M.P., and Yates J.R. 3rd,Anal Chem.2001, 73: 5683-5690.
Wool A., Smilansky Z.,Proteomics 2000, 2: 1365-1373.
Yergey A.L., Coorssen J.R., Backlund P.S. Jr, Blank P.S., et al.,J. Am. Soc. Mass Spectrom.2002, 13: 784-791.
Zhang N, Aebersold R, Schwikowski B.,Proteomics2002 2: 1406-1412.
Zhang R., Regnier F.E.,J. Proteome Res, 2002, 1: 139-147.
Zhu X , Graber A., Hatten S., Juhasz P.S., et al.,50th ASMS Conference, 2002, Jun. 2-6, Orlando, FL.
Gras R., et al. Improving protein identification from peptide mass fingerprinting through a parameterized multi-level scoring algorithm and an optimized peak detection. Electrophoresis. 1999; vol. 20:3535-3550.
Papayannopoulos, I.A., The Interpretation of Collision-induced Dissociation Tandern Mass Spectra of Peptides, Mass Spectrometry Reviews, 1995; vol. 14:49-73.
Partial International Search Report for PCT/US03/26471 as an annex to an Invitation to Pay Additional Fees.
Jensen, O.N., et al. “Delayed extraction improves specificity in database searches by matrix-assisted laser desorption/ionization peptide maps”Rapid Communications in Mass Spectrometry1996 (10);1371-1378.
International Search Report for PCT/US03/26471.
Graber Armin
Juhasz Peter
Martin Stephen A.
Patterson Dale H.
Applera Corporation
Lahive & Cockfield LLP
Wells Nikita
LandOfFree
Method for characterizing biomolecules utilizing a result... does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Method for characterizing biomolecules utilizing a result..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Method for characterizing biomolecules utilizing a result... will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-3385853