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Suse Broyde

This is a preview profile on BiomedExperts - the first literature-based scientific social network. It brings the right researchers together and allows them to collaborate online. Collexis and Dell provide the BiomedExperts network of +1.5 Million pre-calculated profiles free of charge to researchers worldwide.

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Co-Publications
Name
63
Geacintov, Nicholas
48
Hingerty, Brian
44
Patel, Dinshaw
21
Shapiro, Robert
13
Amin, Shantu
10
Wang, Lihua
9
Wu, Min
9
Gorin, Andrey
9
Ding, Shuang
9
Mao, B
9
Kolbanovskiy, Alexander
9
Jia, Lei
7
Perlow, Rebecca
7
Scicchitano, David
7
Shafirovich, Vladimir

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Publications

TOP 3
Jia Lei; Kropachev Konstantin; Ding Shuang; Van Houten Bennett; Geacintov Nicholas E; Broyde Suse
Exploring damage recognition models in prokaryotic nucleotide excision repair with a benzo[a]pyrene-derived lesion in UvrB.
Zhang Na; Ding Shuang; Kolbanovskiy Alexander; Shastry Anant; Kuzmin Vladimir A; Bolton Judy L; Patel Dinshaw J; Broyde Suse; Geacintov Nicholas E
NMR and computational studies of stereoisomeric equine estrogen-derived DNA cytidine adducts in oligonucleotide duplexes: opposite orientations of diastereomeric forms.
Ding Shuang; Jia Lei; Durandin Alexander; Crean Conor; Kolbanovskiy Alexander; Shafirovich Vladimir; Broyde Suse; Geacintov Nicholas E
Absolute configurations of spiroiminodihydantoin and allantoin stereoisomers: comparison of computed and measured electronic circular dichroism spectra.

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All Publications

2009: Jia Lei; Kropachev Konstantin; Ding Shuang; Van Houten Bennett; Geacintov Nicholas E; Broyde Suse
Exploring damage recognition models in prokaryotic nucleotide excision repair with a benzo[a]pyrene-derived lesion in UvrB.
Biochemistry 2009;48(38):8948-57.
2009: Zhang Na; Ding Shuang; Kolbanovskiy Alexander; Shastry Anant; Kuzmin Vladimir A; Bolton Judy L; Patel Dinshaw J; Broyde Suse; Geacintov Nicholas E
NMR and computational studies of stereoisomeric equine estrogen-derived DNA cytidine adducts in oligonucleotide duplexes: opposite orientations of diastereomeric forms.
Biochemistry 2009;48(30):7098-109.
2009: Ding Shuang; Jia Lei; Durandin Alexander; Crean Conor; Kolbanovskiy Alexander; Shafirovich Vladimir; Broyde Suse; Geacintov Nicholas E
Absolute configurations of spiroiminodihydantoin and allantoin stereoisomers: comparison of computed and measured electronic circular dichroism spectra.
Chemical research in toxicology 2009;22(6):1189-93.
2009: Wang Lihua; Broyde Suse; Zhang Yingkai
Polymerase-tailored variations in the water-mediated and substrate-assisted mechanism for nucleotidyl transfer: insights from a study of T7 DNA polymerase.
Journal of molecular biology 2009;389(4):787-96.
2009: Xu Pingna; Oum Lida; Lee Yuan-Cho; Geacintov Nicholas E; Broyde Suse
Visualizing sequence-governed nucleotide selectivities and mutagenic consequences through a replicative cycle: processing of a bulky carcinogen N2-dG lesion in a Y-family DNA polymerase.
Biochemistry 2009;48(22):4677-90.
2009: Rechkoblit Olga; Malinina Lucy; Cheng Yuan; Geacintov Nicholas E; Broyde Suse; Patel Dinshaw J
Impact of conformational heterogeneity of OxoG lesions and their pairing partners on bypass fidelity by Y family polymerases.
Structure (London, England : 1993) 2009;17(5):725-36.
2009: Kropachev Konstantin; Kolbanovskii Marina; Cai Yuqin; Rodríguez Fabian; Kolbanovskii Alexander; Liu Yang; Zhang Lu; Amin Shantu; Patel Dinshaw; Broyde Suse; Geacintov Nicholas E
The sequence dependence of human nucleotide excision repair efficiencies of benzo[a]pyrene-derived DNA lesions: insights into the structural factors that favor dual incisions.
Journal of molecular biology 2009;386(5):1193-203.
2009: Donny-Clark Kerry; Shapiro Robert; Broyde Suse
Accommodation of an N-(deoxyguanosin-8-yl)-2-acetylaminofluorene adduct in the active site of human DNA polymerase iota: Hoogsteen or Watson-Crick base pairing?
Biochemistry 2009;48(1):7-18.
2009: Cai Yuqin; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Differential nucleotide excision repair susceptibility of bulky DNA adducts in different sequence contexts: hierarchies of recognition signals.
Journal of molecular biology 2009;385(1):30-44.
2008: Jia Lei; Geacintov Nicholas E; Broyde Suse
The N-clasp of human DNA polymerase kappa promotes blockage or error-free bypass of adenine- or guanine-benzo[a]pyrenyl lesions.
Nucleic acids research 2008;36(20):6571-84.
2008: Dimitri Alexandra; Burns John A; Broyde Suse; Scicchitano David A
Transcription elongation past O6-methylguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase.
Nucleic acids research 2008;36(20):6459-71.
2008: Ding Shuang; Wang Yan; Kolbanovskiy Alexander; Durandin Alexander; Bolton Judy L; van Breemen Richard B; Broyde Suse; Geacintov Nicholas E
Determination of absolute configurations of 4-hydroxyequilenin-cytosine and -adenine adducts by optical rotatory dispersion, electronic circular dichroism, density functional theory calculations, and mass spectrometry.
Chemical research in toxicology 2008;21(9):1739-48.
2008: Dimitri Alexandra; Jia Lei; Shafirovich Vladimir; Geacintov Nicholas E; Broyde Suse; Scicchitano David A
Transcription of DNA containing the 5-guanidino-4-nitroimidazole lesion by human RNA polymerase II and bacteriophage T7 RNA polymerase.
DNA repair 2008;7(8):1276-88.
2008: Ding Shuang; Shapiro Robert; Cai Yuqin; Geacintov Nicholas E; Broyde Suse
Conformational properties of equilenin-DNA adducts: stereoisomer and base effects.
Chemical research in toxicology 2008;21(5):1064-73.
2008: Broyde Suse; Wang Lihua; Rechkoblit Olga; Geacintov Nicholas E; Patel Dinshaw J
Lesion processing: high-fidelity versus lesion-bypass DNA polymerases.
Trends in biochemical sciences 2008;33(5):209-19.
2008: Xu Pingna; Oum Lida; Geacintov Nicholas E; Broyde Suse
Nucleotide selectivity opposite a benzo[a]pyrene-derived N2-dG adduct in a Y-family DNA polymerase: a 5'-slippage mechanism.
Biochemistry 2008;47(9):2701-9.
2008: Broyde Suse; Wang Lihua; Zhang Ling; Rechkoblit Olga; Geacintov Nicholas E; Patel Dinshaw J
DNA adduct structure-function relationships: comparing solution with polymerase structures.
Chemical research in toxicology 2008;21(1):45-52.
2008: Dimitri Alexandra; Goodenough Angela K; Guengerich F Peter; Broyde Suse; Scicchitano David A
Transcription processing at 1,N2-ethenoguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase.
Journal of molecular biology 2008;375(2):353-66.
2007: Cai Yuqin; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Dynamics of a benzo[a]pyrene-derived guanine DNA lesion in TGT and CGC sequence contexts: enhanced mobility in TGT explains conformational heterogeneity, flexible bending, and greater susceptibility to nucleotide excision repair.
Journal of molecular biology 2007;374(2):292-305.
2007: Mocquet Vincent; Kropachev Konstantin; Kolbanovskiy Marina; Kolbanovskiy Alexander; Tapias Angels; Cai Yuqin; Broyde Suse; Geacintov Nicholas E; Egly Jean-Marc
The human DNA repair factor XPC-HR23B distinguishes stereoisomeric benzo[a]pyrenyl-DNA lesions.
The EMBO journal 2007;26(12):2923-32.
2007: Jia Lei; Shafirovich Vladimir; Geacintov Nicholas E; Broyde Suse
Lesion specificity in the base excision repair enzyme hNeil1: modeling and dynamics studies.
Biochemistry 2007;46(18):5305-14.
2007: Wang Lihua; Yu Xinyun; Hu Po; Broyde Suse; Zhang Yingkai
A water-mediated and substrate-assisted catalytic mechanism for Sulfolobus solfataricus DNA polymerase IV.
Journal of the American Chemical Society 2007;129(15):4731-7.
2007: Ding Shuang; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
4-hydroxyequilenin-adenine lesions in DNA duplexes: stereochemistry, damage site, and structure.
Biochemistry 2007;46(1):182-91.
2007: Perlow-Poehnelt Rebecca A; Likhterov Ilya; Wang Lihua; Scicchitano David A; Geacintov Nicholas E; Broyde Suse
Increased flexibility enhances misincorporation: temperature effects on nucleotide incorporation opposite a bulky carcinogen-DNA adduct by a Y-family DNA polymerase.
The Journal of biological chemistry 2007;282(2):1397-408.
2007: Xu Pingna; Oum Lida; Beese Lorena S; Geacintov Nicholas E; Broyde Suse
Following an environmental carcinogen N2-dG adduct through replication: elucidating blockage and bypass in a high-fidelity DNA polymerase.
Nucleic acids research 2007;35(13):4275-88.
2007: Rodríguez Fabián A; Cai Yuqin; Lin Chin; Tang Yijin; Kolbanovskiy Alexander; Amin Shantu; Patel Dinshaw J; Broyde Suse; Geacintov Nicholas E
Exocyclic amino groups of flanking guanines govern sequence-dependent adduct conformations and local structural distortions for minor groove-aligned benzo[a]pyrenyl-guanine lesions in a GG mutation hotspot context.
Nucleic acids research 2007;35(5):1555-68.
2006: Durandin Alexander; Jia Lei; Crean Conor; Kolbanovskiy Alexander; Ding Shuang; Shafirovich Vladimir; Broyde Suse; Geacintov Nicholas E
Assignment of absolute configurations of the enantiomeric spiroiminodihydantoin nucleobases by experimental and computational optical rotatory dispersion methods.
Chemical research in toxicology 2006;19(7):908-13.
2006: Jia Lei; Shafirovich Vladimir; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
Flexible 5-guanidino-4-nitroimidazole DNA lesions: structures and thermodynamics.
Biochemistry 2006;45(21):6644-55.
2006: Rechkoblit Olga; Malinina Lucy; Cheng Yuan; Kuryavyi Vitaly; Broyde Suse; Geacintov Nicholas E; Patel Dinshaw J
Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion.
PLoS biology 2006;4(1):e11.
2006: Zhang Ling; Rechkoblit Olga; Wang Lihua; Patel Dinshaw J; Shapiro Robert; Broyde Suse
Mutagenic nucleotide incorporation and hindered translocation by a food carcinogen C8-dG adduct in Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): modeling and dynamics studies.
Nucleic acids research 2006;34(11):3326-37.
2006: Wang Lihua; Broyde Suse
A new anti conformation for N-(deoxyguanosin-8-yl)-2-acetylaminofluorene (AAF-dG) allows Watson-Crick pairing in the Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4).
Nucleic acids research 2006;34(3):785-95.
2005: Ding Shuang; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
Equilenin-derived DNA adducts to cytosine in DNA duplexes: structures and thermodynamics.
Biochemistry 2005;44(44):14565-76.
2005: Jia Lei; Shafirovich Vladimir; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
Structural and thermodynamic features of spiroiminodihydantoin damaged DNA duplexes.
Biochemistry 2005;44(40):13342-53.
2005: Zhang Ling; Shapiro Robert; Broyde Suse
Molecular dynamics of a food carcinogen-DNA adduct in a replicative DNA polymerase suggest hindered nucleotide incorporation and extension.
Chemical research in toxicology 2005;18(9):1347-63.
2005: Jia Lei; Shafirovich Vladimir; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
Spiroiminodihydantoin lesions derived from guanine oxidation: structures, energetics, and functional implications.
Biochemistry 2005;44(16):6043-51.
2005: Wang Lihua; Wu Min; Yan S Frank; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Accommodation of a 1S-(-)-benzo[c]phenanthrenyl-N6-dA adduct in the Y-family Dpo4 DNA polymerase active site: structural insights through molecular dynamics simulations.
Chemical research in toxicology 2005;18(3):441-56.
2005: Zhang Na; Lin Chin; Huang Xuanwei; Kolbanovskiy Aleksandr; Hingerty Brian E; Amin Shantu; Broyde Suse; Geacintov Nicholas E; Patel Dinshaw J
Methylation of cytosine at C5 in a CpG sequence context causes a conformational switch of a benzo[a]pyrene diol epoxide-N2-guanine adduct in DNA from a minor groove alignment to intercalation with base displacement.
Journal of molecular biology 2005;346(4):951-65.
2004: Perlow-Poehnelt Rebecca A; Zharkov Dmitry O; Grollman Arthur P; Broyde Suse
Substrate discrimination by formamidopyrimidine-DNA glycosylase: distinguishing interactions within the active site.
Biochemistry 2004;43(51):16092-105.
2004: Wu Min; Yan S Frank; Tan Jian; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Conformational searches elucidate effects of stereochemistry on structures of deoxyadenosine covalently bound to tumorigenic metabolites of benzo[C] phenanthrene.
Frontiers in bioscience : a journal and virtual library 2004;9():2807-18.
2004: Perlow-Poehnelt Rebecca A; Likhterov Ilya; Scicchitano David A; Geacintov Nicholas E; Broyde Suse
The spacious active site of a Y-family DNA polymerase facilitates promiscuous nucleotide incorporation opposite a bulky carcinogen-DNA adduct: elucidating the structure-function relationship through experimental and computational approaches.
The Journal of biological chemistry 2004;279(35):36951-61.
2004: Zhang Qing; Broyde Suse; Schlick Tamar
Deformations of promoter DNA bound to carcinogens help interpret effects on TATA-element structure and activity.
Philosophical transactions. Series A, Mathematical, physical, and engineering sciences 2004;362(1820):1479-96.
2004: Yan S Frank; Wu Min; Geacintov Nicholas E; Broyde Suse
Altering DNA polymerase incorporation fidelity by distorting the dNTP binding pocket with a bulky carcinogen-damaged template.
Biochemistry 2004;43(24):7750-65.
2004: Yang Linjing; Beard William A; Wilson Samuel H; Broyde Suse; Schlick Tamar
Highly organized but pliant active site of DNA polymerase beta: compensatory mechanisms in mutant enzymes revealed by dynamics simulations and energy analyses.
Biophysical journal 2004;86(6):3392-408.
2004: Wang Lihua; Hingerty Brian E; Shapiro Robert; Broyde Suse
Structural and stereoisomer effects of model estrogen quinone-derived DNA adducts: N6-(2-hydroxyestron-6(alpha,beta)-yl)-2'-deoxyadenosine and N2-(2-hydroxyestron-6(alpha,beta)-yl)-2'-deoxyguanosine.
Chemical research in toxicology 2004;17(3):311-24.
2004: Zaika Elena I; Perlow Rebecca A; Matz Eileen; Broyde Suse; Gilboa Rotem; Grollman Arthur P; Zharkov Dmitry O
Substrate discrimination by formamidopyrimidine-DNA glycosylase: a mutational analysis.
The Journal of biological chemistry 2004;279(6):4849-61.
2003: Peterson Lisa A; Vu Choua; Hingerty Brian E; Broyde Suse; Cosman Monique
Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex.
Biochemistry 2003;42(45):13134-44.
2003: Schinecker Thomas M; Perlow Rebecca A; Broyde Suse; Geacintov Nicholas E; Scicchitano David A
Human RNA polymerase II is partially blocked by DNA adducts derived from tumorigenic benzo[c]phenanthrene diol epoxides: relating biological consequences to conformational preferences.
Nucleic acids research 2003;31(20):6004-15.
2003: Ding Shuang; Shapiro Robert; Geacintov Nicholas E; Broyde Suse
Conformations of stereoisomeric base adducts to 4-hydroxyequilenin.
Chemical research in toxicology 2003;16(6):695-707.
2003: Yan Shixiang; Wu Min; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Simulating structural and thermodynamic properties of carcinogen-damaged DNA.
Biophysical journal 2003;84(4):2137-48.
2003: Perlow Rebecca A; Broyde Suse
Extending the understanding of mutagenicity: structural insights into primer-extension past a benzo[a]pyrene diol epoxide-DNA adduct.
Journal of molecular biology 2003;327(4):797-818.
2003: Yan Shixiang; Wu Min; Buterin Tonko; Naegeli Hanspeter; Geacintov Nicholas E; Broyde Suse
Role of base sequence context in conformational equilibria and nucleotide excision repair of benzo[a]pyrene diol epoxide-adenine adducts.
Biochemistry 2003;42(8):2339-54.
2002: Hilario Pablo; Yan Shixiang; Hingerty Brian E; Broyde Suse; Basu Ashis K
Comparative mutagenesis of the C8-guanine adducts of 1-nitropyrene and 1,6- and 1,8-dinitropyrene in a CpG repeat sequence. A slipped frameshift intermediate model for dinucleotide deletion.
The Journal of biological chemistry 2002;277(47):45068-74.
2002: Geacintov Nicholas E; Broyde Suse; Buterin Tonko; Naegeli Hanspeter; Wu Min; Yan Shixiang; Patel Dinshaw J
Thermodynamic and structural factors in the removal of bulky DNA adducts by the nucleotide excision repair machinery.
Biopolymers 2002;65(3):202-10.
2002: Perlow Rebecca A; Broyde Suse
Toward understanding the mutagenicity of an environmental carcinogen: structural insights into nucleotide incorporation preferences.
Journal of molecular biology 2002;322(2):291-309.
2002: Yang Linjing; Beard William; Wilson Samuel; Roux Benoit; Broyde Suse; Schlick Tamar
Local deformations revealed by dynamics simulations of DNA polymerase Beta with DNA mismatches at the primer terminus.
Journal of molecular biology 2002;321(3):459-78.
2002: Wu Min; Yan Shixiang; Patel Dinshaw J; Geacintov Nicholas E; Broyde Suse
Relating repair susceptibility of carcinogen-damaged DNA with structural distortion and thermodynamic stability.
Nucleic acids research 2002;30(15):3422-32.
2002: Perlow Rebecca A; Kolbanovskii Alexander; Hingerty Brian E; Geacintov Nicholas E; Broyde Suse; Scicchitano David A
DNA adducts from a tumorigenic metabolite of benzo[a]pyrene block human RNA polymerase II elongation in a sequence- and stereochemistry-dependent manner.
Journal of molecular biology 2002;321(1):29-47.
2002: Wang Lihua; Hingerty Brian E; Srinivasan A R; Olson Wilma K; Broyde Suse
Accurate representation of B-DNA double helical structure with implicit solvent and counterions.
Biophysical journal 2002;83(1):382-406.
2002: Yan Shixiang; Wu Min; Ding Shuang; Geacintov Nicholas E; Broyde Suse
Conformational analysis of a 4-hydroxyequilenin Guanine adduct using density functional theory.
Chemical research in toxicology 2002;15(5):648-53.
2002: Yang Linjing; Beard William A; Wilson Samuel H; Broyde Suse; Schlick Tamar
Polymerase beta simulations suggest that Arg258 rotation is a slow step rather than large subdomain motions per se.
Journal of molecular biology 2002;317(5):651-71.
2001: Wu M; Yan S; Patel D J; Geacintov N E; Broyde S
Cyclohexene ring and Fjord region twist inversion in stereoisomeric DNA adducts of enantiomeric benzo[c]phenanthrene diol epoxides.
Chemical research in toxicology 2001;14(12):1629-42.
2001: Ruan Q; Zhuang P; Li S; Perlow R; Srinivasan A R; Lu X J; Broyde S; Olson W K; Geacintov N E
Base sequence effects in bending induced by bulky carcinogen-DNA adducts: experimental and computational analysis.
Biochemistry 2001;40(35):10458-72.
2001: Yan S; Shapiro R; Geacintov N E; Broyde S
Stereochemical, structural, and thermodynamic origins of stability differences between stereoisomeric benzo[a]pyrene diol epoxide deoxyadenosine adducts in a DNA mutational hot spot sequence.
Journal of the American Chemical Society 2001;123(29):7054-66.
2001: Brown K; Hingerty B E; Guenther E A; Krishnan V V; Broyde S; Turteltaub K W; Cosman M
Solution structure of the 2-amino-1- methyl-6-phenylimidazo[4,5-b]pyridine C8-deoxyguanosine adduct in duplex DNA.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(15):8507-12.
2001: Perlow R A; Broyde S
Evading the proofreading machinery of a replicative DNA polymerase: induction of a mutation by an environmental carcinogen.
Journal of molecular biology 2001;309(2):519-36.
2001: Gauvin J; Broyde S; Shapiro R
The food mutagen 2-amino-3,8-dimethylimidazo[4,5-f]quinoxaline: a conformational analysis of its major DNA adduct and comparison with the 2-amino-3-methylimidazo[4,5-f]quinoline adduct.
Chemical research in toxicology 2001;14(5):476-82.
2001: Lin C H; Huang X; Kolbanovskii A; Hingerty B E; Amin S; Broyde S; Geacintov N E; Patel D J
Molecular topology of polycyclic aromatic carcinogens determines DNA adduct conformation: a link to tumorigenic activity.
Journal of molecular biology 2001;306(5):1059-80.
2000: Tan J; Geacintov N E; Broyde S
Conformational determinants of structures in stereoisomeric cis-opened anti-benzo[a]pyrene diol epoxide adducts to adenine in DNA.
Chemical research in toxicology 2000;13(9):811-22.
2000: Shimotakahara S; Gorin A; Kolbanovskiy A; Kettani A; Hingerty B E; Amin S; Broyde S; Geacintov N; Patel D J
Accomodation of S-cis-tamoxifen-N(2)-guanine adduct within a bent and widened DNA minor groove.
Journal of molecular biology 2000;302(2):377-93.
1999: Wu X; Shapiro R; Broyde S
Conformational analysis of the major DNA adduct derived from the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline.
Chemical research in toxicology 1999;12(10):895-905.
1999: Gu Z; Gorin A; Hingerty B E; Broyde S; Patel D J
Solution structures of aminofluorene [AF]-stacked conformers of the syn [AF]-C8-dG adduct positioned opposite dC or dA at a template-primer junction.
Biochemistry 1999;38(33):10855-70.
1999: Gu Z; Gorin A; Krishnasamy R; Hingerty B E; Basu A K; Broyde S; Patel D J
Solution structure of the N-(deoxyguanosin-8-yl)-1-aminopyrene ([AP]dG) adduct opposite dA in a DNA duplex.
Biochemistry 1999;38(33):10843-54.
1999: Mao B; Gu Z; Gorin A; Chen J; Hingerty B E; Amin S; Broyde S; Geacintov N E; Patel D J
Solution structure of the (+)-cis-anti-benzo[a]pyrene-dA ([BP]dA) adduct opposite dT in a DNA duplex.
Biochemistry 1999;38(33):10831-42.
1999: Xie X M; Geacintov N E; Broyde S
Origins of conformational differences between cis and trans DNA adducts derived from enantiomeric anti-benzo[a]pyrene diol epoxides.
Chemical research in toxicology 1999;12(7):597-609.
1999: Xie X M; Geacintov N E; Broyde S
Stereochemical origin of opposite orientations in DNA adducts derived from enantiomeric anti-benzo[a]pyrene diol epoxides with different tumorigenic potentials.
Biochemistry 1999;38(10):2956-68.
1998: Roy D; Hingerty B E; Shapiro R; Broyde S
A slipped replication intermediate model is stabilized by the syn orientation of N-2-aminofluorene- and N-2-(acetyl)aminofluorene-modified guanine at a mutational hotspot.
Chemical research in toxicology 1998;11(11):1301-11.
1998: Patel D J; Mao B; Gu Z; Hingerty B E; Gorin A; Basu A K; Broyde S
Nuclear magnetic resonance solution structures of covalent aromatic amine-DNA adducts and their mutagenic relevance.
Chemical research in toxicology 1998;11(5):391-407.
1998: Shapiro R; Ellis S; Hingerty B E; Broyde S
Effect of ring size on conformations of aromatic amine-DNA adducts: the aniline-C8 guanine adduct resides in the B-DNA major groove.
Chemical research in toxicology 1998;11(4):335-41.
1998: Singh S B; Beard W A; Hingerty B E; Wilson S H; Broyde S
Interactions between DNA polymerase beta and the major covalent adduct of the carcinogen (+)-anti-benzo[a]pyrene diol epoxide with DNA at a primer-template junction.
Biochemistry 1998;37(3):878-84.
1998: Mao B; Hingerty B E; Broyde S; Patel D J
Solution structure of the aminofluorene [AF]-external conformer of the anti-[AF]-C8-dG adduct opposite dC in a DNA duplex.
Biochemistry 1998;37(1):95-106.
1998: Mao B; Hingerty B E; Broyde S; Patel D J
Solution structure of the aminofluorene [AF]-intercalated conformer of the syn-[AF]-C8-dG adduct opposite dC in a DNA duplex.
Biochemistry 1998;37(1):81-94.
1997: Mao B; Gu Z; Gorin A; Hingerty B E; Broyde S; Patel D J
Solution structure of the aminofluorene-stacked conformer of the syn [AF]-C8-dG adduct positioned at a template-primer junction.
Biochemistry 1997;36(47):14491-501.
1997: Mao B; Gorin A; Gu Z; Hingerty B E; Broyde S; Patel D J
Solution structure of the aminofluorene-intercalated conformer of the syn [AF]-C8-dG adduct opposite a--2 deletion site in the NarI hot spot sequence context.
Biochemistry 1997;36(47):14479-90.
1997: Feng B; Gorin A; Kolbanovskiy A; Hingerty B E; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (-)-trans-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the minor groove.
Biochemistry 1997;36(45):13780-90.
1997: Feng B; Gorin A; Hingerty B E; Geacintov N E; Broyde S; Patel D J
Structural alignment of the (+)-trans-anti-benzo[a]pyrene-dG adduct positioned opposite dC at a DNA template-primer junction.
Biochemistry 1997;36(45):13769-79.
1997: Grad R; Shapiro R; Hingerty B E; Broyde S
A molecular mechanics and dynamics study of the minor adduct between DNA and the carcinogen 2-(acetylamino)fluorene (dG-N2-AAF).
Chemical research in toxicology 1997;10(10):1123-32.
1997: Geacintov N E; Cosman M; Hingerty B E; Amin S; Broyde S; Patel D J
NMR solution structures of stereoisometric covalent polycyclic aromatic carcinogen-DNA adduct: principles, patterns, and diversity.
Chemical research in toxicology 1997;10(2):111-46.
1996: Mao B; Vyas R R; Hingerty B E; Broyde S; Basu A K; Patel D J
Solution conformation of the N-(deoxyguanosin-8-yl)-1-aminopyrene ([AP]dG) adduct opposite dC in a DNA duplex.
Biochemistry 1996;35(39):12659-70.
1996: Cosman M; Hingerty B E; Luneva N; Amin S; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (-)-cis-anti-benzo[a]pyrenyl-dG adduct opposite dC in a DNA duplex: intercalation of the covalently attached BP ring into the helix with base displacement of the modified deoxyguanosine into the major groove.
Biochemistry 1996;35(30):9850-63.
1996: Nolan S J; Vyas R R; Hingerty B E; Ellis S; Broyde S; Shapiro R; Basu A K
Solution properties and computational analysis of an oligodeoxynucleotide containing N-(deoxyguanosin-8-yl)-1-aminopyrene.
Carcinogenesis 1996;17(1):133-44.
1995: Mao B; Hingerty B E; Broyde S; Patel D J
Solution conformation of [AF]dG opposite a -2 deletion site in a DNA duplex: intercalation of the covalently attached aminofluorene ring into the helix with base displacement of the C8-modified syn guanine and adjacent unpaired 3'-adenine into the major groove.
Biochemistry 1995;34(51):16641-53.
1995: Cosman M; Hingerty B E; Geacintov N E; Broyde S; Patel D J
Structural alignments of (+)- and (-)-trans-anti-benzo[a]pyrene-dG adducts positioned at a DNA template-primer junction.
Biochemistry 1995;34(46):15334-50.
1995: Cosman M; Xu R; Hingerty B E; Amin S; Harvey R G; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (-)-trans-anti-5-methylchrysene-dG adduct opposite dC in a DNA duplex: DNA bending associated with wedging of the methyl group of 5-methylchrysene to the 3'-side of the modification site.
Biochemistry 1995;34(18):6247-60.
1995: Mao B; Cosman M; Hingerty B E; Broyde S; Patel D J
Solution conformation of [AF]dG opposite a -1 deletion site in a DNA duplex: intercalation of the covalently attached aminofluorene ring into the helix with base displacement of the C8-modified Syn guanine into the major groove.
Biochemistry 1995;34(18):6226-38.
1995: Abuaf P; Hingerty B E; Broyde S; Grunberger D
Solution conformation of the N-(deoxyguanosin-8-yl)aminofluorene adduct opposite deoxyinosine and deoxyguanosine in DNA by NMR and computational characterization.
Chemical research in toxicology 1995;8(3):369-78.
1995: Cosman M; Laryea A; Fiala R; Hingerty B E; Amin S; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (-)-trans-anti-benzo[c]phenanthrene-dA ([BPh]dA) adduct opposite dT in a DNA duplex: intercalation of the covalently attached benzo[c]phenanthrenyl ring to the 3'-side of the adduct site and comparison with the (+)-trans-anti-[BPh]dA opposite dT stereoisomer.
Biochemistry 1995;34(4):1295-307.
1995: Shapiro R; Ellis S; Hingerty B E; Broyde S
Major and minor groove conformations of DNA trimers modified on guanine or adenine by 4-aminobiphenyl: adenine adducts favor the minor groove.
Chemical research in toxicology 1995;8(1):117-27.
1994: Cosman M; Fiala R; Hingerty B E; Amin S; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (+)-cis-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the minor groove.
Biochemistry 1994;33(38):11518-27.
1994: Cosman M; Fiala R; Hingerty B E; Amin S; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (+)-trans-anti-[BP]dG adduct opposite a deletion site in a DNA duplex: intercalation of the covalently attached benzo[a]pyrene into the helix with base displacement of the modified deoxyguanosine into the major groove.
Biochemistry 1994;33(38):11507-17.
1994: Singh S B; Li B; Hingerty B E; Shapiro R; Broyde S
Molecular dynamics simulation of a tumorigenic benzo[a]pyrene metabolite bound to DNA at a single strand-double strand junction.
Annals of the New York Academy of Sciences 1994;726():57-70.
1994: Shapiro R; Sidawi D; Miao Y S; Hingerty B E; Schmidt K E; Moskowitz J; Broyde S
Conformation of amine-modified DNA: 2-aminofluorene- and 2-(acetylamino)fluorene-modified deoxydinucleoside monophosphates with all possible nearest neighbors. A comparison of search and optimization methods.
Chemical research in toxicology 1994;7(2):239-53.
1994: Carothers A M; Yuan W; Hingerty B E; Broyde S; Grunberger D; Snyderwine E G
Mutation and repair induced by the carcinogen 2-(hydroxyamino)-1-methyl-6-phenylimidazo[4,5-b]pyridine (N-OH-PhIP) in the dihydrofolate reductase gene of Chinese hamster ovary cells and conformational modeling of the dG-C8-PhIP adduct in DNA.
Chemical research in toxicology 1994;7(2):209-18.
1993: Cosman M; Fiala R; Hingerty B E; Laryea A; Lee H; Harvey R G; Amin S; Geacintov N E; Broyde S; Patel D
Solution conformation of the (+)-trans-anti-[BPh]dA adduct opposite dT in a DNA duplex: intercalation of the covalently attached benzo[c]phenanthrene to the 5'-side of the adduct site without disruption of the modified base pair.
Biochemistry 1993;32(46):12488-97.
1993: Cosman M; de los Santos C; Fiala R; Hingerty B E; Ibanez V; Luna E; Harvey R; Geacintov N E; Broyde S; Patel D J
Solution conformation of the (+)-cis-anti-[BP]dG adduct in a DNA duplex: intercalation of the covalently attached benzo[a]pyrenyl ring into the helix and displacement of the modified deoxyguanosine.
Biochemistry 1993;32(16):4145-55.
1993: O'Handley S F; Sanford D G; Xu R; Lester C C; Hingerty B E; Broyde S; Krugh T R
Structural characterization of an N-acetyl-2-aminofluorene (AAF) modified DNA oligomer by NMR, energy minimization, and molecular dynamics.
Biochemistry 1993;32(10):2481-97.
1992: de los Santos C; Cosman M; Hingerty B E; Ibanez V; Margulis L A; Geacintov N E; Broyde S; Patel D J
Influence of benzo[a]pyrene diol epoxide chirality on solution conformations of DNA covalent adducts: the (-)-trans-anti-[BP]G.C adduct structure and comparison with the (+)-trans-anti-[BP]G.C enantiomer.
Biochemistry 1992;31(23):5245-52.
1992: Cosman M; de los Santos C; Fiala R; Hingerty B E; Singh S B; Ibanez V; Margulis L A; Live D; Geacintov N E; Broyde S
Solution conformation of the major adduct between the carcinogen (+)-anti-benzo[a]pyrene diol epoxide and DNA.
Proceedings of the National Academy of Sciences of the United States of America 1992;89(5):1914-8.
1991: Singh S B; Hingerty B E; Singh U C; Greenberg J P; Geacintov N E; Broyde S
Structures of the (+)- and (-)-trans-7,8-dihydroxy-anti-9,10-epoxy-7,8,9,10-tetrahydrobenzo(a)pyre ne adducts to guanine-N2 in a duplex dodecamer.
Cancer research 1991;51(13):3482-92.
1990: Norman D; Live D; Sastry M; Lipman R; Hingerty B E; Tomasz M; Broyde S; Patel D J
NMR and computational characterization of mitomycin cross-linked to adjacent deoxyguanosines in the minor groove of the d(T-A-C-G-T-A).d(T-A-C-G-T-A) duplex.
Biochemistry 1990;29(11):2861-75.
1989: Shapiro R; Hingerty B E; Broyde S
Minor-groove binding models for acetylaminofluorene modified DNA.
Journal of biomolecular structure & dynamics 1989;7(3):493-513.
1989: Norman D; Abuaf P; Hingerty B E; Live D; Grunberger D; Broyde S; Patel D J
NMR and computational characterization of the N-(deoxyguanosin-8-yl)aminofluorene adduct [(AF)G] opposite adenosine in DNA: (AF)G[syn].A[anti] pair formation and its pH dependence.
Biochemistry 1989;28(18):7462-76.
1989: Hingerty B E; Figueroa S; Hayden T L; Broyde S
Prediction of DNA structure from sequence: a build-up technique.
Biopolymers 1989;28(7):1195-222.
1988: Jacobson M D; Shapiro R; Underwood G R; Broyde S; Verna L; Hingerty B E
Synthesis and conformation of a dinucleoside monophosphate modified by aniline.
Chemical research in toxicology 1988;1(3):152-9.
1987: Broyde S; Hingerty B E
Visualization of an AAF induced frameshift mutation: molecular views of base displacement in B-DNA from minimized potential energy calculations.
Nucleic acids research 1987;15(16):6539-52.
1986: Hingerty B E; Broyde S
Energy minimized structures of carcinogen-DNA adducts: 2-acetylaminofluorene and 2-aminofluorene.
Journal of biomolecular structure & dynamics 1986;4(3):365-72.
1986: Shapiro R; Underwood G R; Zawadzka H; Broyde S; Hingerty B E
Conformation of d(CpG) modified by the carcinogen 4-aminobiphenyl: a combined experimental and theoretical analysis.
Biochemistry 1986;25(8):2198-205.
1985: Hingerty B E; Broyde S
Carcinogen-base stacking and base-base stacking in dCpdG modified by (+) and (-) anti-BPDE.
Biopolymers 1985;24(12):2279-99.
1985: Broyde S; Hingerty B E; Srinivasan A R
Influence of the carcinogen 4-aminobiphenyl on DNA conformation.
Carcinogenesis 1985;6(5):719-25.
1985: Broyde S; Hingerty B
Base displacement in AAF-modified Z-DNA.
Carcinogenesis 1985;6(1):151-4.
1985: Broyde S; Hingerty B
Conformations of DNA adducts with polycyclic aromatic carcinogens.
Progress in clinical and biological research 1985;172A():153-71.
1984: Neidle S; Kuroda R; Broyde S; Hingerty B E; Levine R A; Miller D W; Evans F E
Studies on the conformation and dynamics of the C8-substituted guanine adduct of the carcinogen acetylaminofluorene; model for a possible Z-DNA modified structure.
Nucleic acids research 1984;12(21):8219-33.
1983: Hingerty B; Broyde S
A conformational analysis of the (+) anti BPDE adduct to the guanine amino group of dCpdG.
Journal of biomolecular structure & dynamics 1983;1(4):905-12.
1983: Broyde S; Hingerty B
Conformation of 2-aminofluorene-modified DNA.
Biopolymers 1983;22(11):2423-41.
1983: Broyde S; Hingerty B
An internal fluorene model for iodo-N-2-acetylaminofluorene modified DNA.
Chemico-biological interactions 1983;47(1):69-78.
1983: Hingerty B; Broyde S
AAF linked to the guanine amino group: a B-Z junction.
Nucleic acids research 1983;11(10):3241-54.
1982: Hingerty B; Broyde S
Conformation of the deoxydinucleoside monophosphate dCpdG modified at carbon 8 of guanine with 2-(acetylamino)fluorene.
Biochemistry 1982;21(13):3243-52.
1982: Hingerty B E; Broyde S B; Olson W K
The poly(rU) coil: a minimum-energy model that matches experimental observations.
Biopolymers 1982;21(6):1167-88.
1982: Broyde S; Hingerty B E
DNA backbone conformation in AAF modified dCpdG: variable conformational modes of achieving base displacement.
Chemico-biological interactions 1982;40(1):113-9.
1981: Santella R M; Grunberger D; Broyde S; Hingerty B E
Z-DNA conformation of N-2-acetylaminofluorene modified poly(dG-dC).poly(dG-dC) determined by reactivity with anti cytidine antibodies and minimized potential energy calculations.
Nucleic acids research 1981;9(20):5459-67.

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