Compositions and methods for analysis of nucleic acids

Details Compositions and methods for analysis of nucleic acids Compositions and methods for analysis of nucleic acids

2007-09-18

2007-09-18

Kim, Young J. (Department: 1637)

Chemistry: molecular biology and microbiology

Measuring or testing process involving enzymes or...

Involving nucleic acid

C435S091100, C435S091200

Reexamination Certificate

active

10890483

ABSTRACT:
Disclosed are a number of methods that can be used in a variety of embodiments, including, creation of a nucleic acid terminated at one or more selected bases, sequence analysis of nucleic acids, mapping of sequence motifs within a nucleic acid, positional mapping of nucleic acid clones, and analysis of telomeric regions. The methods utilize double-stranded templates, and in most aspects involve a strand replacement reaction initiated at one or more random or specific locations created in a nucleic acid molecule, and in certain aspects utilizing an oligonucleotide primer.

REFERENCES:
patent: 4942124 (1990-07-01), Church
patent: 5112736 (1992-05-01), Caldwell et al.
patent: 5149625 (1992-09-01), Church et al.
patent: 5418149 (1995-05-01), Gelfand et al.
patent: 5489508 (1996-02-01), West et al.
patent: 5503980 (1996-04-01), Cantor
patent: 5506100 (1996-04-01), Surzycki et al.
patent: 5552278 (1996-09-01), Brenner
patent: 5599675 (1997-02-01), Brenner
patent: 5604098 (1997-02-01), Mead et al.
patent: 5645986 (1997-07-01), West et al.
patent: 5648215 (1997-07-01), West et al.
patent: 5686245 (1997-11-01), West et al.
patent: 5686306 (1997-11-01), West et al.
patent: 5693474 (1997-12-01), Shay et al.
patent: 5695932 (1997-12-01), West et al.
patent: 5707795 (1998-01-01), West et al.
patent: 5714318 (1998-02-01), Sagner et al.
patent: 5714330 (1998-02-01), Brenner et al.
patent: 5741677 (1998-04-01), Kozlowski et al.
patent: 5750341 (1998-05-01), Macevicz
patent: 5965384 (1999-10-01), Boel et al.
patent: 6117634 (2000-09-01), Langmore et al.
patent: 6531284 (2003-03-01), Legrain et al.
patent: 6762022 (2004-07-01), Makarov et al.
patent: 0 415 755 (1991-03-01), None
patent: 0 439 182 (1991-07-01), None
patent: 0 415 755 (1991-08-01), None
patent: 0 439 182 (1991-10-01), None
patent: 0 497 272 (1992-08-01), None
patent: 0 608 737 (1994-01-01), None
patent: 0 684 315 (1995-03-01), None
patent: 0 497 272 (1995-10-01), None
patent: 0 415 755 (1995-12-01), None
patent: 0 439 182 (1996-04-01), None
patent: WO86/07612 (1986-12-01), None
patent: WO90/13666 (1990-11-01), None
patent: WO93/02212 (1993-02-01), None
patent: WO93/21340 (1993-10-01), None
patent: WO93/24654 (1993-12-01), None
patent: WO94/24313 (1994-10-01), None
patent: WO95/06752 (1995-03-01), None
patent: WO96/32504 (1996-10-01), None
patent: WO97/03210 (1997-01-01), None
patent: WO98/15644 (1998-04-01), None
patent: WO98/15652 (1998-04-01), None
patent: WO98/39485 (1998-09-01), None
Li et al., “Ligation independent cloning irrespective of restriction site compatibility,” Nucleic Acids Research, 1997, vol. 25, No. 20, pp. 4165-4166.
Willem, “Adaptor PCR for the Specific Amplification of Unknown DNA Fragmentation,” Biotechnique, vol. 24, No. 1, pp. 26 and 28, 1998.
Broude et al., “Enhanced DNA sequencing by hybridization,”Proc. Natl. Acad. Sci. USA, 91:3072-3076, Apr. 1994.
Fu et al., “A DNA sequencing strategy that requires only five bases of known terminal sequence for priming,”Proc. Natl. Acad. Sci. USA, 92:10162-10166, Oct. 1995.
Fu et al., “Sequencing double-stranded DNA by strand displacement,”Nucl. Acids Res., 25(3):677-679, Feb. 1997.
Makarov et al., “Long G tails at both ends of human chromosomes suggest a C strand degradation mechanism for telomere shortening,”Cell, 88:657-666, Mar. 7, 1997.
Wellinger et al., “Evidence for a new step in telomere maintainance,”Cell, 85:423-433, 1996.
Wellinger et al., “Origin activation and formation of single strand TG1-3tails occur sequentially in late S phase on a yeast linear plasmid,”Mol Cell. Biol., 13:4057-4065, 1993.
Welliniger et al., “Sacharomycestelomeres aquire single-strand TG1-3tails late in S phase,”Cell, 72:51-60, 1993.
Wellinger et al., “Use of non-denaturing Southern hybridization and two dimensional agarose gels to detect putative intermediates in telomere replication inSacharomyces cerevisae,” Chromosoma, 102, S150-S156, 1992.
Ehrlich, et al. “The specificity of pancreatic deoxyribonuclease,”Eur J Biochem. 40:143-147, 1973.
Kovacs et al., “The generation of a single nick per plasmid molecule using restriction endonucleases with multiple recognition sites,”Gene, 29:63, 1984.
Meyer and Geider, “Bacteriophage fd gene II-protein. I. Purification, involvement in RF replication, and the expression of gene II,”J. Biol. Chem., 254:12636, 1979.
Olsen et al., “Investigation of the inhibitory role of phosphorothioate internucleotidic linkages on the catalytic activity of the restriction endonucleaseEcoRV,”Biochem., 29:9546, 1990.
Labeit et al., “Laboratory methods: A new method of DNA sequencing using deoxynucleotide α-thiotriphosphates,”DNA, 5(2):173-177, 1986.
Porter et al., “Direct PCR sequencing with boronated nucleotides,”Nucl. Acids Res., 25(8):1611-1617, 1997.
Lindahl, “DNA Glycosylases, Endonucleases for Apurinic/Apyrimidinic Sites, and Base Excision-Repair,”Prog. Nucleic Acid Res. Mol. Biol. 22:135-192, 1979.
Partial International Search Report dated Aug. 17, 1998 (PCT/US98/04423) (UMIC:027P).
U.S. Appl. No. 09/035,677, filed Mar. 5, 1997 (Abandoned).
Chiu et al., “Differential dependence on chromatin structure for copper and iron induction of DNA double-strand breaks,”Biochemistry34:2653-2661, 1995.
Dear and Cook, “Happy mapping: linkage mapping using a physical analogue of meiosis,”Nucl. Acids Res. 21:13-20, 1993.
Fitzgerald et al., “Rapid shotgun cloning utilizing the two base recognition endonucleaseCviJI,”Nucl. Acids Res. 20:3753-3762, 1992.
Gish and Eckstein, “DNA and RNA sequence determination based on phosphorothioate chemistry,”Science240: 1520-1522, 1988.
Grecz et al., “Freeze-thaw injury: evidence for double-strand breaks inEscherichia coliDNA,”Biochem. Biophys. Res. Comm. 93:1110-1113, 1980 (Medline abstract).
Matsugo et al., “DNA strand scission and cell-killing activity of hydroperoxynaphthalimide derivates upon photoirradiation,”Nucl. Acids Symp. Ser. 25:109-110, 1991 (HCA abstract).
International Search Report dated Jan. 12, 1999 (PCT/US98/04423) (UMIC:027P).

Affiliated with

Also associated with

Rating

Compositions and methods for analysis of nucleic acids does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Compositions and methods for analysis of nucleic acids, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Compositions and methods for analysis of nucleic acids will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-3775596