Chemistry: analytical and immunological testing – Peptide – protein or amino acid
Reexamination Certificate
2011-03-08
2011-03-08
Cordero Garcia, Marcela M (Department: 1654)
Chemistry: analytical and immunological testing
Peptide, protein or amino acid
C530S345000
Reexamination Certificate
active
07901943
ABSTRACT:
Compositions and methods for controlling or eliminating isotope effects during fractionation of chemically equivalent but isotopically distinct compounds. Isotope coding agents contain heavy isotopes other than deuterium. The invention facilitates intelligent data acquisition. After sample fractionation, isotope abundance ratios are calculated using mass spectrometry, and analytes of interest are identified in real time.
REFERENCES:
patent: 5393669 (1995-02-01), Brown
patent: 5952653 (1999-09-01), Covey et al.
patent: 6096717 (2000-08-01), Jarvik
patent: 6156527 (2000-12-01), Schmidt et al.
patent: 6391649 (2002-05-01), Chait et al.
patent: 6629040 (2003-09-01), Goodlett et al.
patent: 6670194 (2003-12-01), Aebersold et al.
patent: 6852544 (2005-02-01), Aebersold et al.
patent: 6864099 (2005-03-01), Regnier
patent: 6872575 (2005-03-01), Regnier
patent: 6905879 (2005-06-01), Qiu et al.
patent: 7045296 (2006-05-01), Aebersold et al.
patent: 7052915 (2006-05-01), Aebersold et al.
patent: 7183116 (2007-02-01), Aebersold et al.
patent: 7183118 (2007-02-01), Aebersold et al.
patent: 7449170 (2008-11-01), Regnier et al.
patent: 2002/0037532 (2002-03-01), Regnier et al.
patent: 2002/0049307 (2002-04-01), Aebersold et al.
patent: 2002/0076739 (2002-06-01), Aebersold et al.
patent: 2002/0119490 (2002-08-01), Aebersold et al.
patent: 2002/0168644 (2002-11-01), Aebersold et al.
patent: 2002/0192720 (2002-12-01), Parker et al.
patent: 2003/0054570 (2003-03-01), Qiu et al.
patent: 2003/0087322 (2003-05-01), Aebersold et al.
patent: 2003/0092076 (2003-05-01), Regnier
patent: 2003/0129769 (2003-07-01), Regnier
patent: 2003/0186326 (2003-10-01), Regnier
patent: 2004/0023306 (2004-02-01), Aebersold et al.
patent: 2004/0033625 (2004-02-01), Aebersold et al.
patent: 2004/0038319 (2004-02-01), Aebersold et al.
patent: 2004/0110186 (2004-06-01), Aebersold et al.
patent: 2004/0265810 (2004-12-01), Aebersold et al.
patent: 2005/0095649 (2005-05-01), Aebersold et al.
patent: 2005/0233399 (2005-10-01), Aebersold et al.
patent: 2006/0008851 (2006-01-01), Aebersold et al.
patent: 2006/0141528 (2006-06-01), Aebersold et al.
patent: 2007/0099251 (2007-05-01), Zhang et al.
patent: 2007/0202539 (2007-08-01), Aebersold et al.
patent: 2007/0269895 (2007-11-01), Aebersold et al.
patent: 2008/0145863 (2008-06-01), Regnier et al.
patent: WO 98/32876 (1998-07-01), None
patent: WO 00/09654 (2000-02-01), None
patent: WO 00/11208 (2000-03-01), None
patent: WO 00/09654 (2000-06-01), None
patent: WO 01/86306 (2001-11-01), None
patent: WO 02/46770 (2002-06-01), None
patent: WO 01/86306 (2003-03-01), None
patent: WO 03/027682 (2003-04-01), None
patent: WO 02/46770 (2004-02-01), None
patent: WO 03/027682 (2004-02-01), None
Haskins, “The application of stable isotopes in biomedical research,”Biomed. Mass Spect., Jul. 1982; 9(7):269-277.
Koletzko et al. “The use of stable isotope techniques for nutritional and metabolic research in paediatrics,”Early Human Dev., 1998; 53 Suppl.:S77-S97.
Regnier and Julka, “Primary amine coding as a path to comparative proteomics,” Jul. 2006Proteomics6(14):3968-3979. Available online on Jun. 26, 2006.
Ross et al., “Multiplexed protein quantitation inSaccharomyces cerevisiaeusing amine-reactive isobaric tagging reagents,” Dec. 2004Mol. Cell. Proteomics3(12):1154-1169. Available online on Sep. 22, 2004.
Aebersold et al., “The isotope-coded affinity tag reagent method for quantitative proteomics,” Jul./Aug. 2001Am. Gen. Prot. Tech. (ISC, inc) AGPT 2001:22-27.
Aebersold et al., “Mass Spectrometry in Proteomics,”Chem Rev. 2001 Feb.; 101(2):269-295.
Aebersold “Quantitative proteome analysis: New technology and applications.” The 14thInternational Symposium of Microscale Separations and Analysis: HPCE 2001; Boston, MA; Jan. 13-18, 2001.Final Program&Book of Abstracts. Lecture L1101; p. 195.
Aebersold and Cravatt, “Proteomics—advances, applications and the challenges that remain,” 2002Trends in Biotech. 20(12 Suppl):s1-s2.
Amini et al., “The impact of buffers and surfactants from micellar electrokinetic chromatography on matrix-assisted laser desorption ionization (MALDI) mass spectrometry of peptides. Effect of buffer type and concentration on mass determination by MALDI-time-of-flight mass spectrometry,”Journal of Chromatography A, 894(1-2):345-355 (2000).
Andersson et al “The use of immobilized Fe+3and other hard metal ions in chromatography of peptides and proteins.” 1996Int. J. Bio-Chromatog. 2:25-36.
Andersen et al., “Functional genomics by mass spectrometry,”FEBS Letters, 480:25-31 (2000).
Anderson et al., “Twenty years of two-dimensional electrophoresis: past, present and future,”Electrophoresis, 17(3):443-453 (1996).
Anderson et al., “Back to the Future: The Human Protein Index (HPI) and the Agenda for Post-Proteomic biology,” 2001 Proteomics 1:3-12.
“Applied Biosystems iTRAQ™ Reagents: amine modifying labeling reagents for multiplexed relative and absolute protein quantification,” Chemistry Reference Guide. Applied Biosystems; Foster City, CA; © 2004. Available online [retrieved Jan. 22, 2008]. Retrieved from the Internet: <http://www3.appliedbiosystems.com/cms/groups/psm—marketing/documents/generaldocuments/cms—041463.pdf>; 96 pages.
AQUA Peptides®—Focus your protein biomarker research: Mass Spectrometry, Product website: Sigma-Aldrich, Inc.; St. Louis, Missouri. 2008. Available online [retrieved on Jan. 22, 2008]. Retrieved from the Internet: <http://www.sigmaaldrich.com/Area—of—Interest/Life—Science/Proteomics—and—Protein—Expr/Protein—Analysis/Mass—Spectrometry/Protein—AQUA.html>; 2 pages.
Arnott et al., “Selective Detection of Membrane Proteins without Antibodies,” 2002 Molecular and Cellular Proteomics 1.2:148-156.
Ausubel et al., eds.,Current Protocols in Molecular Biology, vols. 1-4, John Wiley & Sons, Inc., New York, NY, 1994; title page, publisher's page and table of contents only; 12 pages.
Badman et al., “Cylindrical Ion Trap Array With Mass Selection by Variation in Trap Dimensions,” 2000 Anal. Chem. 72:5079-5086.
Bai et al., “High performance hydrophobic interaction chromatography—A new approach to separate intermediates of protein folding.”Chinese Chemical Letters8(1):67-70 (1997).
Boersma et al., “19F NMR Metabolomics for the elucidation of microbial degradation pathways of fluorophenols,” 2001J. Ind. Microbiol. Biotechn. 26:22-34.
Bottari et al., “Design and synthesis of visible isotope-coded affinity tags for the absolute quantification fo specific proteins in complex mixtures,” 2004Bioconjugate Chem. 15(2):380-388. Epub Feb. 21, 2004.
Cagney and Emili, “De novopeptide sequencing and quantitative profiling of complex protein mixtures using mass-coded abundance tagging,” Feb. 2002Nature Biotech. 20(2):163-170.
Chakraborty et al “Identification of up-regulated protein inE. colibased on signature peptides approach” 22th American Chemical Society National Meeting, Division of Analytical Chemistry, Symposium for Proteomics and Genomics in the 21stCentury: Lecture 158. Washington, D.C.; Aug. 23, 2000. Available online [retrieved on Mar. 14, 2007]. Retrieved from the Internet: <http://chemistry.org/portal/PersonalScheduler/SearchResults.jsp?refineMode=Y&advSearch=0>; 1 pg.
Chakraborty, Asish, “Comparative Proteomics Based on Global Internal Standard Labeling Technology,” Ph.D. Thesis, Purdue University, (cover date May 2002).
Chakraborty “Global internal standard technology for comparative proteomics” 2002J. of Chromatography A949(1-2):173-84.
Chen et al., “Site-Specific Mass Tagging with Stable Isotopes in Proteins for Accurate and Efficient Protein Identification,”Anal. Chem2000; 72:1134-11
Regnier Fred E.
Zhang Roujian
Cordero Garcia Marcela M
Mueting Raasch & Gebhardt, P.A.
Purdue Research Foundation
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