Method of identifying nucleotide differences

Details Method of identifying nucleotide differences Method of identifying nucleotide differences

1998-04-03

1999-07-20

Zitomer, Stephanie W.

Chemistry: molecular biology and microbiology

Measuring or testing process involving enzymes or...

Involving nucleic acid

536 243, 536 2433, 935 77, 935 76, C12Q 168, C07H 2104, C07H 2102

Patent

active

059255250

ABSTRACT:
The present invention provides methods and apparatus for sequencing, fingerprinting and mapping biological macromolecules, typically biological polymers. The methods make use of a plurality of sequence specific recognition reagents which can also be used for classification of biological samples, and to characterize their sources.

REFERENCES:
patent: 4542102 (1985-09-01), Dattagupta et al.
patent: 4689405 (1987-08-01), Frank et al.
patent: 4713326 (1987-12-01), Dattagupta et al.
patent: 4728591 (1988-03-01), Clark et al.
patent: 4855225 (1989-08-01), Fung
patent: 4965188 (1990-10-01), Mullis et al.
patent: 4981783 (1991-01-01), Augenlicht
patent: 5002867 (1991-03-01), Macevicz
patent: 5026840 (1991-06-01), Dattagupta et al.
patent: 5143854 (1992-09-01), Pirrung et al.
patent: 5202231 (1993-04-01), Drmanac et al.
patent: 5215882 (1993-06-01), Bahl
patent: 5445934 (1995-08-01), Fodor et al.
patent: 5492806 (1996-02-01), Drmanac et al.
patent: 5525464 (1996-06-01), Drmanac et al.
Amit et al., "Photosensitive protecting groups of amino sugars and their use in glycoside synthesis. 2-nitrobenzyloxycarbonylamino and 6-nitroveratryloxy-carbonylamino derivatives" J. Org. Chem. 39(2) :192-196 (1974).
Bains and Smith, "A novel method for nucleic acid sequence determination," J. Theor. Biol. 135(3) :303-307 (1988).
Barinaga, M., "Will `DNA Chip`Speed Genome Initiative?" Science 253:1489 (Sep. 27, 1991).
Carrano et al., "A high-resolution, fluorescence-based, semiautomated method for DNA fingerprinting" Genomics 4:129-136 (1989).
Chetverin, A.B. and Kramer, F.R., "Oligonucleotide Arrays: New Concepts and Possibilities" Bio/Tech. 12:1093-1099 (Nov. 1994).
Coulson et al., "Toward a physical map of the genome of the nematode Caenorhabditis elegans" Proc. Natl. Acad. Sci. USA 83:7821-7825 (Oct. 1986).
Craig et al., "Ordering of cosmid clones covering the herpes simplex virus type I (HSV-I) genome: A test case for fingerprinting by hybridisation," Nucl. Acids Res. 18:2653-2660 (1990).
Dower, W.J. and Fodor, S., "The Search for Molecular Diversity (II): Recombinant and Synthetic Randomized Peptide Libraries" Ann. Rep. Med. Chem. 26:271-280 (1991).
Drmanac et al., "Reliable hybridization of oligonucleotides as short as six nucleotides" DNA Cell Biol. 9(7):527-534 (1990).
Drmanac et al., "An algorithm for the DNA sequence generation from k-tuple word contents of the minimal number of random fragments" J. Biomol. Struct. Dyn. 8(5):1085-1102 (1991).
Drmanac et al. "Sequencing of megabase plus DNA by hybridization: theory of the method" Genomics 4:114-128 (1989).
Drmanac et al., "Partial Sequencing by Oligo-hybridization: Concept and Applications in Genome Analysis" The First Intl. Conf. Electrophoresis, Supercomputing, and the Human Genome, Eds. Cantor and Lim, World Scientific, pp. 60-74 (Apr. 10-13, 1990).
Drmanac et al., "Sequencing by Oligonucleotide Hybridization: A Promising Framwork in Decoding of the Genome Program" The First Intl. Conf. Electrophoresis, Supercomputing, and the Human Genome, Eds. Cantor and Lim, World Scientific, pp. 47-59 (Apr. 10-13, 1990).
Evans et al., "Physical Mapping of Complex Genomes by Cosmid Multiplex Analysis" Proc. Natl. Acad. Sci. USA 86:5030-5034 (Jul. 1989).
Feinberg and Vogelstein, "A Technique for Radiolabeling DNA Restriction Endonuclease Fragments to High Specific Activity" Anal. Biochem. 137:266-267 (1984) Addendum.
Fodor et al., "Light-directed, spatially addressable parallel chemical synthesis" Science 251:767-773 (1991).
Hodgson and Fisk, "Hybridization probe size control: optimized `oligolabeling`" Nucl. Acids Res. 15(15) :6295 (1987).
Khrapko et al., "A method for DNA sequencing by hybridization with oligonucleotide matrix" DNA Seg. Map 1:375-388 (1991).
Khrapko et al., "An oligonucleotide hybridization approach to DNA sequencing" FEBS Lett. 256(1,2):118-122 (Oct 1989).
Lander et al., "Genomic Mapping by Fingerprinting Random Clones: A Mathematical Analysis" Genomics 2:231-239 (1988).
Little, P., "Clone maps made simple" Nature 346:611-612 (1990).
Lysov et al., "Determination of the nucleotide sequence of DNA using hybridization with oligonucleotides. A new method" Dokl. Akad. Nauk. SSSR 303:1508-1511 (1988).
McCray et al., "Properties and uses of photoreactive caged compounds" Ann. Rev. Biophys. Chem. 18:239-270 (1989).
Michiels et al., "Molecular Approaches to Genome Analysis: A Strategy for the Construction of Ordered Overlapping Clone Libraries" Cabios 3(3):203-210 (1987).
Ohtsuka et al., "Studies on transfer ribonucleic acids and related compounds" Nucl. Acids Res. 1(10):1351-1357 (1974).
Olson et al., "Random-clone strategy for genomic restriction mapping in yeast" Proc. Natl. Acad. Sci. USA 83:7826-7830 (Oct. 1986).
Patchornik et al., "Photosensitive Protecting Groups" J. Am. Chem. Soc. 92(21):6333-6335 (Oct. 21, 1970).
Pevzner, P.A., "DNA Physical Mapping and Alternating Eulerian Cycles in Coloured Graphs" Algorithmica 13(1-2):77-105 (1995).
Pevzner, P.A., "1-Tuple DNA sequencing: Computer analysis" J. Biomol. Struct. Dyn. 7(1):63-73 (1989).
Pevzner and Waterman, "Multiple Filtration and Approximate Pattern Matching" Algorithmica 13(1-2):135-154 (1995).
Pevzner and Waterman, "Generalized Sequence Alignment and Duality" Adv. Applied Math. 14:139-171 (1993).
Pfeifer et al., "Genomic sequencing and methylation analysis by ligation mediated PCR" Science 246:810-813 (Nov. 10, 1989).
Poustka et al., "Molecular approaches to mammalian genetics" Cold Spring Harbor Symp. Quant. Biol. 51(Pt. 1):131-139 (1986).
Sambrook et al., in: Molecular Cloning, A Laboratory Manual, 2nd Edition, Cold Spring Harbor Lab. Press, Cold Spring Harbor, NY, pp. 11.45-11.47 (1989).
Seed, B., "Diazotizable arylamine cellulose papers for the coupling and hybridization of nucleic acids" Nucl. Acids Res. 10(5):1799-1810 (1982).
Southern et al., "Analyzing and Comparing Nucleic Acid Sequences by Hybridization to Arrays of Oligonucleotides: Evaluation Using Experimental Models" Genomics 13:1008-1017 (1992).
Wood et al., "Base composition-independent hybridization in tetramethylammonium chloride: a method for oligonucleotide screening of highly complex gene libraries" Proc. Natl. Acad. Sci. USA 82:1585-1588 (Mar. 1985).
Church et al., Proc. Natl. Acad. Sci., 81:1991-1995 (Apr., 1984).
Ekins et al., Analytica Chimica Acta, 227:73-96 (1989).
Perkin Elmer Cetus, GeneAmp DNA Amplification Reagent Kit, insert (Oct., 1988).

Affiliated with

Also associated with

Rating

Method of identifying nucleotide differences 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 of identifying nucleotide differences, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Method of identifying nucleotide differences will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-1321339