Site-selective reactions of imperfectly matched DNA with small chemical molecules: applications in mutation detection.

[1]  R. Cotton,et al.  Comparative study of permanganate oxidation reactions of nucleotide bases by spectroscopy. , 2002, Bioorganic chemistry.

[2]  K. Nakatani,et al.  Recognition of guanine-guanine mismatches by the dimeric form of 2-amino-1,8-naphthyridine. , 2001, Journal of the American Chemical Society.

[3]  D. Boger,et al.  A simple, high-resolution method for establishing DNA binding affinity and sequence selectivity. , 2001, Journal of the American Chemical Society.

[4]  E. Yeramian,et al.  Genes and the physics of the DNA double-helix. , 2000, Gene.

[5]  N. Sugimoto,et al.  Thermodynamics-structure relationship of single mismatches in RNA/DNA duplexes. , 2000, Biochemistry.

[6]  C. Leumann,et al.  Oligodeoxynucleotides containing conformationally constrained abasic sites: a UV and fluorescence spectroscopic investigation on duplex stability and structure. , 2000, Nucleic Acids Research.

[7]  F. Gu,et al.  DNA damage by thiol-activated neocarzinostatin chromophore at bulged sites. , 2000, Biochemistry.

[8]  Ralph Rapley,et al.  The Nucleic Acid Protocols Handbook , 2000, Humana Press.

[9]  K. Nakatani,et al.  Recognition of a single guanine bulge by 2-acylamino-1,8-naphthyridine , 2000 .

[10]  T. Ellenberger,et al.  DNA bending and a flip‐out mechanism for base excision by the helix–hairpin–helix DNA glycosylase, Escherichia coli AlkA , 2000, The EMBO journal.

[11]  I. Tinoco,et al.  Solution structure of Cobalt(III)hexammine complexed to the GAAA tetraloop, and metal-ion binding to G.A mismatches. , 2000, Journal of molecular biology.

[12]  R. Wartell,et al.  The effect of base sequence on the stability of RNA and DNA single base bulges. , 1999, Biochemistry.

[13]  A. Wang,et al.  Imidazole-imidazole pair as a minor groove recognition motif for T:G mismatched base pairs. , 1999, Nucleic acids research.

[14]  L. Hurley,et al.  A Thymine:Thymine Mismatch Enhances the Pluramycin Alkylation Site Downstream of the TBP−TATA Box Complex , 1999 .

[15]  M. Zacharias,et al.  Conformational analysis of single-base bulges in A-form DNA and RNA using a hierarchical approach and energetic evaluation with a continuum solvent model. , 1999, Journal of molecular biology.

[16]  J. Constant,et al.  A simple and sensitive method for in vitro quantitation of abasic sites in DNA. , 1999, Chemical research in toxicology.

[17]  J. Barton,et al.  A versatile mismatch recognition agent: specific cleavage of a plasmid DNA at a single base mispair. , 1999, Biochemistry.

[18]  R. Cotton,et al.  Reactivity of potassium permanganate and tetraethylammonium chloride with mismatched bases and a simple mutation detection protocol. , 1999, Nucleic acids research.

[19]  M. Paci,et al.  Solution structure of DAPI selectively bound in the minor groove of a DNA T.T mismatch-containing site: NMR and molecular dynamics studies. , 1998, Nucleic Acids Research.

[20]  D. Ramaiah,et al.  Detection of thymine [2+2] photodimer repair in DNA: selective reaction of KMnO4. , 1998, Nucleic acids research.

[21]  E. Ohtsuka,et al.  Neighboring base damage induced by permanganate oxidation of 8-oxoguanine in DNA. , 1998, Nucleic acids research.

[22]  J. SantaLucia,et al.  Nearest-neighbor thermodynamics of internal A.C mismatches in DNA: sequence dependence and pH effects. , 1998, Biochemistry.

[23]  J. Barton,et al.  Recognition of DNA Base Mismatches by a Rhodium Intercalator , 1997 .

[24]  C. Woods,et al.  Potassium permanganate and tetraethylammonium chloride are a safe and effective substitute for osmium tetroxide in solid-phase fluorescent chemical cleavage of mismatch. , 1997, Nucleic acids research.

[25]  K. Nicolaou,et al.  Molecular design, chemical synthesis, kinetic studies, calculations, and biological studies of novel enediynes equipped with triggering, detection, and deactivating devices. Model dynemicin A epoxide and cis-diol systems , 1993 .

[26]  Jeffrey Green,et al.  A role for iron in transcriptional activation by FNR , 1993, FEBS letters.

[27]  K. Makino,et al.  Synthesis and damage specificity of a novel probe for the detection of abasic sites in DNA. , 1993, Biochemistry.

[28]  T. Lindahl.  Instability and decay of the primary structure of DNA , 1993, Nature.

[29]  J. Hearing,et al.  Interaction of Epstein-Barr virus nuclear antigen 1 with the viral latent origin of replication , 1992, Journal of virology.

[30]  D A LeBlanc,et al.  Thermodynamic characterization of deoxyribooligonucleotide duplexes containing bulges. , 1991, Biochemistry.

[31]  D. Lilley,et al.  Single base mismatches in DNA. Long- and short-range structure probed by analysis of axis trajectory and local chemical reactivity. , 1989, Journal of molecular biology.

[32]  D. Lilley,et al.  The contrasting structures of mismatched DNA sequences containing looped-out bases (bulges) and multiple mismatches (bubbles). , 1989, Nucleic acids research.

[33]  D. Bentley,et al.  Detection of novel genetic markers by mismatch analysis. , 1989, Nucleic acids research.

[34]  J. Gralla,et al.  KMnO4 as a probe for lac promoter DNA melting and mechanism in vivo. , 1989, The Journal of biological chemistry.

[35]  P. Nielsen,et al.  Detection of intercalation‐induced changes in DNA structure by reaction with diethyl pyrocarbonate or potassium permanganate Evidence against the induction of Hoogsteen base pairing by echinomycin , 1988, FEBS letters.

[36]  K. Mullis,et al.  Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. , 1988, Science.

[37]  D. Lilley,et al.  Highly selective chemical modification of cruciform loops by diethyl pyrocarbonate. , 1986, Nucleic acids research.

[38]  D Riesner,et al.  Mismatches in DNA double strands: thermodynamic parameters and their correlation to repair efficiencies. , 1986, Nucleic acids research.

[39]  Ignacio Tinoco,et al.  Base-base mismatches. Thermodynamics of double helix formation for dCA3XA3G + dCT3YT3G (X, Y = A, C, G, T) , 1985, Nucleic Acids Res..

[40]  D. Patel,et al.  Structure, dynamics, and energetics of deoxyguanosine . thymidine wobble base pair formation in the self-complementary d(CGTGAATTCGCG) duplex in solution. , 1982, Biochemistry.

[41]  G. Teebor,et al.  Identification of the cis-thymine glycol moiety in oxidized deoxyribonucleic acid. , 1981, Biochemistry.

[42]  J. Horwitz,et al.  Nucleosides. 13. The concurrent introduction of two different blocking groups into some ribonucleosides. , 1971, Journal of Organic Chemistry.

[43]  G. L. Brown,et al.  Reaction of N-Cyclohexyl, N′-β (4-Methylmorpholinium) Ethyl Carbodiimide Iodide With Nucleic Acids and Polynucleotides , 1965, Nature.

[44]  Shinsuke Sando,et al.  Scanning of guanine–guanine mismatches in DNA by synthetic ligands using surface plasmon resonance , 2001, Nature Biotechnology.

[45]  R. Cotton,et al.  Chemical cleavage of mismatch: A new look at an established method , 1998, Human mutation.

[46]  S. Rokita,et al.  Conformation-specific detection of guanine in DNA: ends, mismatches, bulges and loops , 1992 .

[47]  H. Aburatani,et al.  Detection of single base mismatches of thymine and cytosine residues by potassium permanganate and hydroxylamine in the presence of tetralkylammonium salts. , 1990, Nucleic acids research.

[48]  L. Loeb,et al.  Mutagenesis by apurinic/apyrimidinic sites. , 1986, Annual review of genetics.