Methods for conducting metabolic analyses

Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or...

Reexamination Certificate

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

C435S006120, C435S968000, C204S450000, C204S451000

Reexamination Certificate

active

06849396

ABSTRACT:
The present invention provides methods and apparatus for purifying metabolites of interest and conducting metabolic analyses. The methods generally involve determining metabolic flux values for a plurality of target analytes by monitoring the relative isotope abundance of a stable isotope in a substrate labeled with the stable isotope and/or one or more target metabolites formed through metabolism of the labeled substrate. Certain methods utilize multiple electrophoretic methods to separate the target analytes from other components within the sample being analyzed. The methods can be used in a variety of applications including screens to identify metabolites that are correlated with certain diseases and diagnostic screens for identifying individuals having, or susceptible to, a disease.

REFERENCES:
patent: 4647445 (1987-03-01), Lees
patent: 4656133 (1987-04-01), Goux
patent: 4690749 (1987-09-01), Van Alstine et al.
patent: 4725343 (1988-02-01), Hjerten et al.
patent: 4830010 (1989-05-01), Marshall
patent: 4842701 (1989-06-01), Smith et al.
patent: 4859301 (1989-08-01), Brenner et al.
patent: 4911808 (1990-03-01), Hjerten
patent: 4931328 (1990-06-01), Swedberg
patent: 4994165 (1991-02-01), Lee et al.
patent: 4997536 (1991-03-01), Ohms et al.
patent: 5015350 (1991-05-01), Wiktorowicz
patent: 5059702 (1991-10-01), Dooley et al.
patent: 5074982 (1991-12-01), Novotny et al.
patent: 5096554 (1992-03-01), Chin
patent: 5110424 (1992-05-01), Chin
patent: 5110434 (1992-05-01), Zhu et al.
patent: 5143753 (1992-09-01), Novotny et al.
patent: 5180475 (1993-01-01), Young et al.
patent: 5181999 (1993-01-01), Wiktorowicz
patent: 5240585 (1993-08-01), Young et al.
patent: 5262031 (1993-11-01), Lux et al.
patent: 5282942 (1994-02-01), Herrick
patent: 5290587 (1994-03-01), Young et al.
patent: 5306412 (1994-04-01), Whitehouse et al.
patent: 5314593 (1994-05-01), Swedberg
patent: 5317156 (1994-05-01), Cooper et al.
patent: 5320727 (1994-06-01), Jackson
patent: 5320730 (1994-06-01), Ewing et al.
patent: 5322608 (1994-06-01), Karger et al.
patent: 5358618 (1994-10-01), Ewing et al.
patent: 5378334 (1995-01-01), Dadoo et al.
patent: 5386832 (1995-02-01), Wagner et al.
patent: 5391274 (1995-02-01), Shieh
patent: 5413917 (1995-05-01), Malloy et al.
patent: 5415747 (1995-05-01), Holloway
patent: 5429728 (1995-07-01), Gordon
patent: 5439803 (1995-08-01), Ross et al.
patent: 5441613 (1995-08-01), McCormick
patent: 5447617 (1995-09-01), Shieh
patent: 5462646 (1995-10-01), Shieh
patent: 5505832 (1996-04-01), Laukien et al.
patent: 5542419 (1996-08-01), Moulton-Barrett et al.
patent: 5599432 (1997-02-01), Manz et al.
patent: 5611903 (1997-03-01), Janssens et al.
patent: 5784154 (1998-07-01), Pawliszyn
patent: 5792331 (1998-08-01), Srinivasan et al.
patent: 5837116 (1998-11-01), Harrington et al.
patent: 5837219 (1998-11-01), Watanabe et al.
patent: 5840388 (1998-11-01), Karger et al.
patent: 5856082 (1999-01-01), Aebersold et al.
patent: 5872010 (1999-02-01), Karger et al.
patent: 5916537 (1999-06-01), Kajiwara et al.
patent: 5924995 (1999-07-01), Klein et al.
patent: 5993627 (1999-11-01), Anderson et al.
patent: 6010846 (2000-01-01), Hellerstein
patent: 6013165 (2000-01-01), Wiktorowicz et al.
patent: 6074542 (2000-06-01), Dolnik et al.
patent: 6103199 (2000-08-01), Bjornson et al.
patent: 6297099 (2001-10-01), Hsich et al.
patent: 6372353 (2002-04-01), Karger et al.
patent: 6375818 (2002-04-01), Huang et al.
patent: 6379971 (2002-04-01), Schneider et al.
patent: 6537432 (2003-03-01), Schneider et al.
patent: 6677114 (2004-01-01), Schneider et al.
patent: WO 9533989 (1995-12-01), None
patent: WO 0011208 (2000-03-01), None
Bai, Jian et al, “Peptide Mapping by CNBr Degradation on a Nitrocellulose Membrane with Analysis by Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry”,Analytical Chemistry, May 15, 1995, Vol. 67. No. 10, pp. 1705-1710.
Bochner, et al., “Complete Analysis of Cellular Nucleotides by Two-dimensional Thin Layer Chromatography,”J. Bio. Chem.257(16):9759-9769 (1982).
Chen, Xiaohui et al. “lsotope Edited Product Ion Assignment by α-N Labelling of Peptides with [2H3(50%)2,4-Dinitrofluorobenzene”,J. Am. Soc. Mass Spectrum, (1999), Vol. 10, pp. 448-542.
Eckerskorn, C. et al, “Analysis of Proteins by Direct-Scanning Infrared-MALDI Mass Spectrometry after 2D-PAGE Separation and Electrobloting”,Anal. Chem., (1997), vol. 69, pp. 2888-2892.
Gausing, K. “Ribosomal Protein inE. coIi.Rate of Synthesis and Pool Size at Different Growth Rates,”MoI. Gen. Genetics, 129:61-75 (1974).
Goodlett, D.R. et al. “The Use of Mass Spectrometry in Proteomics”;International Business Communications, Pre-conference Symposium Slides, Wednesday, Dec. 1, 1999, pp. 1-11.
Gygi, Steven P. et al. “Quantitative Analysis of Complex Protein Mixtures Using Isotope-coded Affinity Tags”,Nature Biotechnology, Oct, 1999, vol. 17, pp. 994-999.
Gygi, Steven P. “Functional Proteomics—Advances in the Development of Drug Leads and Diagnostic Applications Using integrated Protein-Based Technologies—Slides”,International Business Communications, 4th International Conference Slides, December 1-3, 1999, pp. 1-11.
Håkansson, Kristina, et al; Electron Capture Dissociation and infrared Multiphoton Dissociation MS/MS of an N-Glycosylated Tryptic Peptide to Yield Complementary Sequence Information;Analytical Chemistry; Sep. 15, 2001: pp. 4530-4536; vol. 73, No. 18.
Henry, Kent D., et al.; Electrospray lonization with Fourier-Transform Mass Spectrometry. Charge State Assignment from Resolved Isotopic Peaks;Organic Mass Spectrometry; 1990; pp. 490-492; vol. 25.
Henzel, W.J. et al. “Identifying Proteins from Two-dimensional Gels by Molecular Mass Searching of Peptide Fragments in Protein Sequence Databases”,Proc. Natl. Acad. Sci. USA, Jun. 1993, vol. 90, pp. 5011-5015.
Hochstrasser, et al. “Methods for increasing the Resolution of Two-Dimensional Protein Electrophoresis,”Anal. Biochem., 173:424-435 (1988).
Huang, Z-H. et al.; “Protein Sequencing by Matrix-Assisted Laser Desorption lonization-Postsource Decay-Mass Spectrometry Analysis of the N-Tris(2,4,6-trimethoxyphenyl)phosphine-Acetylated Tryptic Digests”,Analytical Biochemistry(1999), vol. 268, pp. 305-317.
Jensen, Ole et al. “Sequence Patterns Produced by Incomplete Ezymatic Digestion or One-step Edman Degradation of Peptide Mixture as Probes for Protein Database Searches”Electrophoresis(1996) vol. 15(5): pp. 938-944.
Jensen, P.K. et al.; “Probing Proteomes Using Capillary Isoelectric Focusing-Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry”,Anal. Chem., Jun. 1, 1999, vol. 71, No. 11, pp. 2076-2084.
Kilar, Ference:Isoelectric Focusing in Capillaries(Chapter 4),CRC Handbook of Capillary Electrophoresis: A Practical Approach, (1994). pp. 95-109.
Kriwacki Richard W., et al; Probing Protein/Protein Interactions with Mass Spectrometry and Isotopic Labeling: Analysis of the p21/Cdk2 Complex;Journal of the American Chemical Society; 1996; pp. 5320-5321; vol. 118.
Li et al. “Improvements on Sample Handling for Rapid Mass Spectrometric Identification of Proteins Resolved by 2D Gel Electrophoresis”Book of Abstracts, 213th ACS National Meeting, San Francisco(Apr. 13-17, 1997).
Mann, et al. “Error-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence Tags”Analytical Chemistry(Dec. 15, 1994) vol. 66(24), pp. 4390-4399.
Marshall, Alan G., et al; Protein Molecular Mass to 1 Da by13C,15N Double-Depletion and FT-ICR Mass Spectrometry;Journal of the American Chemical Society; 1997: pp. 433-434: vol. 119.
McCormick, Randy M.,Capillary Zone Electrophoresis of Peptides(Chapter 12),CRC Handbook of Capillary Electrophoresis: A Practical Approach, (1994), pp. 287-323.
Mirgorodskaya, E., et al; Localization ef O-Glycosylation Sites in Peptides by Electron Capture Dissociation in a Fourier Transform Mass Spectrometer;Analyt

LandOfFree

Say what you really think

Search LandOfFree.com for the USA inventors and patents. Rate them and share your experience with other people.

Rating

Methods for conducting metabolic analyses does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Methods for conducting metabolic analyses, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Methods for conducting metabolic analyses will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFUS-PAI-O-3510239

  Search
All data on this website is collected from public sources. Our data reflects the most accurate information available at the time of publication.