Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving antigen-antibody binding – specific binding protein...
Reexamination Certificate
2006-05-16
2006-05-16
Le, Long V. (Department: 1641)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving antigen-antibody binding, specific binding protein...
C435S004000, C435S007920, C435S024000, C435S177000, C435S188000, C435S964000, C436S173000, C436S175000, C436S165000, C436S168000
Reexamination Certificate
active
07045296
ABSTRACT:
Methods using gel electrophoresis and mass spectrometry for the rapid, quantitative analysis of proteins or protein function in mixtures of proteins derived from two or more samples in one unit operation are disclosed. In one embodiment the method includes (a) preparing an extract of proteins from each of at least two different samples; (b) providing a set of substantially chemically identical and differentially isotopically labeled protein reagents; (c) reacting the extract of proteins from different samples of step (a) with a different isotopically labeled reagent from the set of step (b) to provide two or more sets of isotopically differentially labeled proteins; (d) mixing each of the two or more sets of isotopically labeled proteins to form a single mixture of isotopically differentially labeled proteins; (e) electrophoresing the mixture of step (d) by an electrophoresing method capable of separating proteins within the mixture; (f) digesting at least a portion of one or more separated proteins of step (e) and (g) detecting the difference in the expression levels of the proteins in the two samples by mass spectrometry based on one or more peptides in the sample of labeled peptides. The analytical method can be used for qualitative and particularly for quantitative analysis of global protein expression profiles in cells and tissues, i.e. the quantitative analysis of proteomes.
REFERENCES:
patent: 5538897 (1996-07-01), Yates, III et al.
patent: 6017693 (2000-01-01), Yates, III et al.
patent: 6043025 (2000-03-01), Minden et al.
patent: 6127134 (2000-10-01), Minden et al.
patent: WO 00/11208 (2000-03-01), None
Sechi et al., “Modification of cysteine residues by alkylation. A tool in peptide mapping and protein identification.” Analytical Chemistry. 1998, vol. 70, pp. 5150-5158.
Bienvenut et al., “Toward a clinical molecular scanner for proteome research: parallel protein chemical processing befor and during Western Blot.” Analytical Chemistry, 1999, vol. 71, pp. 4800-4807.
Clauser et al., “Rapid mass spectrometric peptide sequencing and mass matching for characterization of human melanoma proteins isolated by two-dimensional PAGE.” Proceeding of the National Academy of Science, USA, vol. 92, pp. 5072-5076, 1995.
Gygi et al., “Quantitative analysis of complex protein mixtures using isotope-coded affinity tags.” Nature Biotechnolgy, vol. 17, 1999, pp. 994-999.
Conrads et al., “Utility if accurate mass tags for proteome-wide protein identification.” Analytical Chemistry, 2000, vol. 72, pp. 3349-3354.
Opitek et al., Comprehensive On-Line LC/LC/MS of Proteins. Analytical Chemistry 1997 69:1518-1524.
Ducret et al, High Throughput Protein Characterization by Automated Reverse-Phase Chromotagraphy/Electrospray Tandem Mass Spectrometry. Protein Science 1998 7:706-719.
Sechi et al, Modification of Cysteine Residues by Alkylation. A Tool in Peptide Mapping and Protein. Identification Analytical Chemistry 1998 70:5150-5158.
Gygi et al, “Quantitative Analysis of Complex Protein Mixtures Using Isotope-Coded Affinity Tags.” Nature Biotechnology 1999 17: 994-999.
Link et al, Direct Analysis of Protein Complexes Using Mass Spectrometry. Nature Biotechnology 1999 17: 676-682.
Bienvenut et al, Toward A Clinical Molecular Scanner for Proteome Research: Parallel Protein Chemical Processing Before and During Western Blot. Analytical Chemistry 1999 71: 4800-4807.
Gygi et al, Evaluation of Two-Dimensional Gel Electrophoresis-Based Proteome Analysis Technology. Proceedings of the National Academy of Sciences 2000 97: 9390-9395.
Chen et al, Site-Specific Mass Tagging with Stable Isotopes in Proteins for Accurate and Efficent Protein Indentification. Analytical Chemistry 2000 72: 1134-1143.
Unlu et al, Difference Gel Electorphoresis: A Single Gel Method for Detecting Changes in Protein Extracts. Electrophoresis 1997 18: 2071-2077.
Unlu et al, Proteomics. Biochemical Society Transactions 27, Part 4 (Apr. 7-9 1999 University of Glasgow) of Techniques Group/Protein and Peptide Science Group/British Electrophoresis Society Joint Colloquium.
Yates et al, Direct Analysis of Proteins in Mixtures. Methods in Molecular Biology 2000 146: 17-26.
Aebersold Rudolf H.
Huang Yulin
Nadler Timothy K.
Parker Kenneth C.
Smolka Marcus B.
Applera Corporation
Cook Lisa V.
Institute for Systems Biology
Karnakis Andrew T.
Le Long V.
LandOfFree
Process for analyzing protein samples does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Process for analyzing protein samples, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Process for analyzing protein samples will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-3598092