Organic compounds -- part of the class 532-570 series – Organic compounds – Carbohydrates or derivatives
Reexamination Certificate
2006-11-14
2006-11-14
Sisson, Bradley L. (Department: 1634)
Organic compounds -- part of the class 532-570 series
Organic compounds
Carbohydrates or derivatives
C536S023100, C435S006120, C435S091100, C436S094000
Reexamination Certificate
active
07135563
ABSTRACT:
The present invention relates to methods, kits and compositions suitable for the improved detection, quantitation and analysis of nucleic acid target sequences using probe-based hybridization assays.
REFERENCES:
patent: 4766062 (1988-08-01), Diamond et al.
patent: 4822733 (1989-04-01), Morrison
patent: 4868103 (1989-09-01), Stavrianopoulos et al.
patent: 4996143 (1991-02-01), Heller et al.
patent: 5200313 (1993-04-01), Carrico
patent: 5401632 (1995-03-01), Wang et al.
patent: 5424413 (1995-06-01), Hogan et al.
patent: 5473060 (1995-12-01), Gryaznov et al.
patent: 5482836 (1996-01-01), Cantor et al.
patent: 5514546 (1996-05-01), Kool
patent: 5527899 (1996-06-01), Froehler
patent: 5538848 (1996-07-01), Livak et al.
patent: 5573906 (1996-11-01), Bannwarth et al.
patent: 5591841 (1997-01-01), Ji et al.
patent: 5612458 (1997-03-01), Hyldig-Nielsen et al.
patent: 5627030 (1997-05-01), Pandian et al.
patent: 5670316 (1997-09-01), Sena et al.
patent: 5683874 (1997-11-01), Kool
patent: 5693471 (1997-12-01), Fresco
patent: 5834185 (1998-11-01), Ts'o et al.
patent: 5854033 (1998-12-01), Lizardi
patent: 6020132 (2000-02-01), Ørum et al.
patent: 6287772 (2001-09-01), Stefano et al.
patent: 6355421 (2002-03-01), Coull et al.
patent: 6485901 (2002-11-01), Gildea et al.
patent: 6528267 (2003-03-01), Coull et al.
patent: 6649349 (2003-11-01), Gildea et al.
patent: 0 552 931 (1993-01-01), None
patent: 0 703 296 (1996-03-01), None
patent: 0 849 363 (1997-12-01), None
patent: 0 857 791 (1997-12-01), None
patent: WO 96/12397 (1996-05-01), None
patent: WO 96/14341 (1996-05-01), None
patent: WO 96/17956 (1996-06-01), None
patent: WO96/40709 (1996-12-01), None
patent: WO97/39008 (1997-10-01), None
patent: WO 98/20019 (1998-05-01), None
Y.M. Agazie, et al., “Characterization of a New Monoclonal Antibody to Triplex DNA and Immunofluorescent Staining of Mammalian Chromosomes,”The Journal of Biological Chemistry, 269(9):7019-7023 (1994).
H. Knudsen and P. E. Nielsen, “ Antisense Properties of Duplex-and Triplex-Forming PNAs,”Nucleic Acids Research, 24(3):494-500 (1996).
P. Wittung, et al., “Extended DNA-Recognition Repertoire of Peptide Nucleic Acid (PNA); PNA-dsDNA Triplex Formed with Cytosine-Rich Homopyrimidine PNA,”Biochemistry, 36:7973-7979 (1997).
L. Betts, et al., “A Nucleic Acid Triple Helix Formed by a Peptide Nucleic Acid-DNA Complex,”Science, 270:1838-1841 (1995).
C. Seeger, et al., “PNA-Mediated Purification of PCR Amplifiable Human Genomic DNA from Whole Blood,”Biotechniques, 23(3):512-517 (1997).
I.A. Il'icheva et al., “PNA Complexes of Polynucleotides and Polyamides: Structure of Two- and Three-Stranded Chimeric Helices Revealed by Conformational Analysis,”International Journal of Quantum Chemistry: Quantum Biology Symposium, 21:157-172 (1994).
A. Yaron et al., “Intramolecular Quenched Fluorogenic Substrates for Hydrolytic Enzymes,”Analytical Biochemistry, 95:228-235 (1979).
P.R. Selvin, “Fluorescence Resonance Energy Transfer,”Methods in Enzymology, 246:300-334 (1995).
R.M. Clegg, “Fluorescence Resonance Energy Transfer and Nucleic Acids,”Methods in Enzymology, 211:353-388 (1992).
G. Haaima, et al., “Increased DNA Binding and Sequence Discrimination of PNA Oligomers Containing 2,6-Diaminopurine,”Nucleic Acids Research, 25(22):4639-4643 (1997).
R.A. Cardullo, et al., “Detection of Nucleic Acid Hybridization by Nonradiative Fluorescence Resonance Energy Transfer,”Proc. Natl. Acad. Sci. USA, 85:8790-8794 (1988).
J.L. Mergny, et al., “Fluorescence Energy Transfer Between Two Triple Helix-Forming Oligonucleotides Bound to Duplex DNA,”Biochemistry, 33:15321-15328 (1994).
I.V. Kutyavin, et al., “Oligonucleotides Containing 2-Aminoadenine and 2-Thiothymine Act as Selectively Binding Complementary Agents,”Biochemistry, 35:11170-11176 (1996).
A.B. Eldrup, et al., “A Novel Peptide Nucleic Acid Monomer for Recognition of Thymine in Triple-Helix Structures,”J. Am. Chem. Soc., 119:1116-1117 (1997).
P.E. Nielsen, “Evidence for (PNA)2/DNA Triplex Structure Upon Binding of PNA to dsDNA by Strand Displacement,”Journal of Molecular Recognition, 7:165-170 (1994).
M. Nilsson, et al., “Padlock Probes: Circularizing Oligonucleotides for Localized DNA Detection,”Science, 265:2085-2088 (1994).
M. Nilsson, et al., “Padlock Probes Reveal Single-Nucleotide Differences, Parent of Origin andin situDistribution of Centromeric Sequences in Human Chromosomes 13 and 21,”Nature Genetics, 16:252-255 (1997).
G.C. Shields, et al., “Molecular Dynamics Simulation of a PNA-DNA-PNA Triple Helix in Aqueous Solution,”J. Am. Chem. Soc., 120:5895-5904 (1998).
A.R. Srinivasan and W.K. Olson, “Molecular Models of Nucleic Acid Triple Helixes. II. PNA and 2′-5′ Backbone Complexes,”J. Am. Chem. Soc., 120:492-499 (1998).
P. Wittung, et al., “Recognition of Double-Stranded DNA by Peptide Nucleic Acid,”Nucleosides&Nucleotides, 16(5&6):599-602 (1997).
P. Wittung, et al., “Observation of a PNA-PNA-PNA Triplex,”J. Chem. Soc., 119:3189-3190 (1997).
M.M. Krasil, “Enhancing the Specificity of Peptide-Nucleic Acid Binding with DNA,”Molecular Biology, 30(2):226-230 (1996).
A. Castro and J.G.K., Williams, “Single-Molecule Detection of Specific Nucleic Acid Sequences in Unamplified Genomic DNA,”Anal. Chem., 69:3915-3920 (1997).
V.V. Demidov, et al., “Kinetic Analysis of Specificity of Duplex DNA Targeting by Homopyrimidine Peptide Nucleic Acids,”Biophysical Journal, 72:2763-2769 (1997).
P.M. Lizardi, et al., “Mutation Detection and Single-Molecule Counting Using Isothermal Rolling-Circle Amplification,”Nature Genetics, 19:225-232 (1998).
O. Almarsson, et al., “Molecular Mechanics Calculations of the Structures of Polyamide Nucleic Acid DNA Duplexes and Triple Helical Hybrids,”Proc. Natl. Acad. Sci., USA, 90:7518-7522 (1993).
M.D. Frank-Kamenetskiians S.M. Mirkin, “Triplex DNA Structures,”Ann. Rev. Biochem., 64:65-95 (1995).
S.K. Kim, et al., “Right-Handed Triplex Formed Between Peptide Nucleic Acid PNA-T8and Poly(dA) Shown by Linear and Circular Dichroism Spectroscopy,”Journal of the American Chemical Society, 115(15):6477-6481 (1993).
M.C. Griffith, et al., “Single and Bis Peptide Nucleic Acids as Triplexing Agents: Binding and Stoichiometry,”J. Am. Chem. Soc., 117:831-832 (1995).
V.V. Demidov, “Complexes of Duplex DNA with Homopyrimidine Peptide Nucleic Acid (PNA),” p. a042.
E.A. Lesnik, et al., “Evaluation of Pyrimidine PNA Binding to ssDNA Targets from Nonequilibrium Melting Experiments,”Nucleic Acids Research, 25(3):568-574 (1997).
L.C. Boffa, et al., “Isolation of Active Genes Containing CAG repeats by DNA Strand Invasion by a Peptide Nucleic Acid,”Proc. Natl. Acad. Sci. USA, 92:1901-1905 (1995).
H. Ørum, et al., “Sequence-Specific Purification of Nucleic Acids by PNA-Controlled Hybrid Selection,”Biotechniques, 19(3):472-480 (1995).
L. Betts, et al., “Crystal Structure of a Nucleic Acid Triplex at 2.5 A: A Peptide Nucleic Acid:DNA Complex,”Ninth Conversation in Biomolecular Stereodynamics, Jun. 20-24, 1995.
Coull James M.
Hyldig-Nielsen Jens J.
Peterson Kenneth H.
Stefano Kyriaki
Stender Henrik
Boston Probes, Inc.
Dako A/S
Hamilton Brook Smith & Reynolds P.C.
Sisson Bradley L.
LandOfFree
Compositions for detecting target sequences 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 for detecting target sequences, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Compositions for detecting target sequences will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-3650180