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Maxim Frank-Kamenetskii

Research Profile

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Chemicals & Drugs

Occupations

Thermodynamics

Procedures

Sequence Analysis, DNA

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Tanggis Bohnuud; Ryan Brenke; Maxim D Frank-Kamenetskii; David R Hall; Chi Ho Ngan; Sandor Vajda; Brandon Zerbe; Dmitri Beglov; Dima Kozakov
Computational mapping reveals dramatic effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde.
Maxim D Frank-Kamenetskii
DNA nanopore sequencing within the technology landscape: Comment on "Nanopores: A journey towards DNA sequencing" by M. Wanunu.
Heiko Kuhn; Maxim D Frank-Kamenetskii
Labeling of unique sequences in double-stranded DNA at sites of vicinal nicks generated by nicking endonucleases.

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2012: Tanggis Bohnuud; Ryan Brenke; Maxim D Frank-Kamenetskii; David R Hall; Chi Ho Ngan; Sandor Vajda; Brandon Zerbe; Dmitri Beglov; Dima Kozakov
Computational mapping reveals dramatic effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde.
Nucleic acids research 2012;40(16):7644-52.
2012: Maxim D Frank-Kamenetskii
DNA nanopore sequencing within the technology landscape: Comment on "Nanopores: A journey towards DNA sequencing" by M. Wanunu.
Physics of life reviews 2012;9(2):167-9; discussion 174-6.
2008: Heiko Kuhn; Maxim D Frank-Kamenetskii
Labeling of unique sequences in double-stranded DNA at sites of vicinal nicks generated by nicking endonucleases.
Nucleic acids research 2008;36(7):e40.
2008: Irina Smolina; Heiko Kuhn; Charles Lee; Maxim D Frank-Kamenetskii
Fluorescence-based detection of short DNA sequences under non-denaturing conditions.
Bioorganic & medicinal chemistry 2008;16(1):84-93.
2007: Irina Smolina; Charles Lee; Maxim D Frank-Kamenetskii
Detection of low-copy-number genomic DNA sequences in individual bacterial cells by using peptide nucleic acid-assisted rolling-circle amplification and fluorescence in situ hybridization.
Applied and environmental microbiology 2007;73(7):2324-8.
2006: Andrew Krueger; Ekaterina Protozanova; Maxim D Frank-Kamenetskii
Sequence-dependent base pair opening in DNA double helix.
Biophysical journal 2006;90(9):3091-9.
2006: Xingguo Liang; Heiko Kuhn; Maxim D Frank-Kamenetskii
Monitoring single-stranded DNA secondary structure formation by determining the topological state of DNA catenanes.
Biophysical journal 2006;90(8):2877-89.
2006: Xingguo Liang; Benjamin Chun-Yeung Li; Kari Jensen; Maxim D Frank-Kamenetskii
Ab initio DNA synthesis accelerated by endonuclease.
Nucleic acids symposium series (2004) 2006;(50):95-6.
2006: Peter Yakovchuk; Ekaterina Protozanova; Maxim D Frank-Kamenetskii
Base-stacking and base-pairing contributions into thermal stability of the DNA double helix.
Nucleic acids research 2006;34(2):564-74.
2005: Heiko Kuhn; Maxim D Frank-Kamenetskii
Template-independent ligation of single-stranded DNA by T4 DNA ligase.
The FEBS journal 2005;272(23):5991-6000.
2005: Quan Du; Maria Vologodskaia; Heiko Kuhn; Maxim D Frank-Kamenetskii; Alexander Vologodskii
Gapped DNA and cyclization of short DNA fragments.
Biophysical journal 2005;88(6):4137-45.
2005: Irina Smolina; Vadim V Demidov; Viatcheslav A Soldatenkov; Sergey Chasovskikh; Maxim D Frank-Kamenetskii
End invasion of peptide nucleic acids (PNAs) with mixed-base composition into linear DNA duplexes.
Nucleic acids research 2005;33(17):e146.
2004: Xingguo Liang; Kari Jensen; Maxim D Frank-Kamenetskii
Very efficient template/primer-independent DNA synthesis by thermophilic DNA polymerase in the presence of a thermophilic restriction endonuclease.
Biochemistry 2004;43(42):13459-66.
2004: Ekaterina Protozanova; Peter Yakovchuk; Maxim D Frank-Kamenetskii
Stacked-unstacked equilibrium at the nick site of DNA.
Journal of molecular biology 2004;342(3):775-85.
2004: Heiko Kuhn; Dmitry I Cherny; Vadim V Demidov; Maxim D Frank-Kamenetskii
Inducing and modulating anisotropic DNA bends by pseudocomplementary peptide nucleic acids.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(20):7548-53.
2004: Ayome Abibi; Ekaterina Protozanova; Vadim V Demidov; Maxim D Frank-Kamenetskii
Specific versus nonspecific binding of cationic PNAs to duplex DNA.
Biophysical journal 2004;86(5):3070-8.
2004: Vadim V Demidov; Maxim D Frank-Kamenetskii
Two sides of the coin: affinity and specificity of nucleic acid interactions.
Trends in biochemical sciences 2004;29(2):62-71.
2003: Ekaterina Protozanova; Vadim V Demidov; Peter E Nielsen; Maxim D Frank-Kamenetskii
Pseudocomplementary PNAs as selective modifiers of protein activity on duplex DNA: the case of type IIs restriction enzymes.
Nucleic acids research 2003;31(14):3929-35.
2003: Heiko Kuhn; Yongbo Hu; Maxim D Frank-Kamenetskii; Vadim V Demidov
Artificial site-specific DNA-nicking system based on common restriction enzyme assisted by PNA openers.
Biochemistry 2003;42(17):4985-92.
2003: Irina Smolina; Vadim V Demidov; Maxim D Frank-Kamenetskii
Pausing of DNA polymerases on duplex DNA templates due to ligand binding in vitro.
Journal of molecular biology 2003;326(4):1113-25.
2002: Ekaterina Protozanova; Vadim V Demidov; Viatcheslav A Soldatenkov; Sergey Chasovskikh; Maxim D Frank-Kamenetskii
Tailoring the activity of restriction endonuclease PleI by PNA-induced DNA looping.
EMBO reports 2002;3(10):956-61.
2002: Vadim V Demidov; Ekaterina Protozanova; Konstantin I Izvolsky; Christopher Price; Peter E Nielsen; Maxim D Frank-Kamenetskii
Kinetics and mechanism of the DNA double helix invasion by pseudocomplementary peptide nucleic acids.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(9):5953-8.
2002: Heiko Kuhn; Vadim V Demidov; James Coull; Mark J Fiandaca; Brian D Gildea; Maxim D Frank-Kamenetskii
Hybridization of DNA and PNA molecular beacons to single-stranded and double-stranded DNA targets.
Journal of the American Chemical Society 2002;124(6):1097-103.
2002: Anita Goel; Tom Ellenberger; Maxim D Frank-Kamenetskii; Dudley R Herschbach
Unifying themes in DNA replication: reconciling single molecule kinetic studies with structural data on DNA polymerases.
Journal of biomolecular structure & dynamics 2002;19(4):571-84.
2002: Heiko Kuhn; Vadim V Demidov; Maxim D Frank-Kamenetskii
Rolling-circle amplification under topological constraints.
Nucleic acids research 2002;30(2):574-80.
2002: Vadim V Demidov; Maxim D Frank-Kamenetskii
PNA openers and their applications.
Methods in molecular biology (Clifton, N.J.) 2002;208():119-30.
2001: Heiko Kuhn; Vadim V Demidov; Brian D Gildea; Mark J Fiandaca; J C Coull; Maxim D Frank-Kamenetskii
PNA beacons for duplex DNA.
Antisense & nucleic acid drug development 2001;11(4):265-70.
2001: A Goel; Maxim D Frank-Kamenetskii; T Ellenberger; Dudley R Herschbach
Tuning DNA "strings": modulating the rate of DNA replication with mechanical tension.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(15):8485-9.
2001: Heiko Kuhn; Maxim D Frank-Kamenetskii; Vadim V Demidov
High-purity preparation of a large DNA dumbbell.
Antisense & nucleic acid drug development 2001;11(3):149-53.
2001: Vadim V Demidov; Natalia E Broude; I V Lavrentieva-Smolina; Heiko Kuhn; Maxim D Frank-Kamenetskii
An artificial primosome: design, function, and applications.
Chembiochem : a European journal of chemical biology 2001;2(2):133-9.
2001: Vadim V Demidov; Heiko Kuhn; I V Lavrentieva-Smolina; Maxim D Frank-Kamenetskii
Peptide nucleic acid-assisted topological labeling of duplex dna.
Methods (San Diego, Calif.) 2001;23(2):123-31.
2001: Vadim V Demidov; Maxim D Frank-Kamenetskii
Sequence-specific targeting of duplex DNA by peptide nucleic acids via triplex strand invasion.
Methods (San Diego, Calif.) 2001;23(2):108-22.
2000: Konstantin I Izvolsky; Vadim V Demidov; Peter E Nielsen; Maxim D Frank-Kamenetskii
Sequence-specific protection of duplex DNA against restriction and methylation enzymes by pseudocomplementary PNAs.
Biochemistry 2000;39(35):10908-13.
1999: Natalia E Broude; Vadim V Demidov; Heiko Kuhn; J Gorenstein; H Pulyaeva; Peter Volkovitsky; Andrzej K Drukier; Maxim D Frank-Kamenetskii
PNA openers as a tool for direct quantification of specific targets in duplex DNA.
Journal of biomolecular structure & dynamics 1999;17(2):237-44.
1999: Heiko Kuhn; Vadim V Demidov; Peter E Nielsen; Maxim D Frank-Kamenetskii
An experimental study of mechanism and specificity of peptide nucleic acid (PNA) binding to duplex DNA.
Journal of molecular biology 1999;286(5):1337-45.
1998: Konstantin I Izvolsky; Vadim V Demidov; NO Bukanov; Maxim D Frank-Kamenetskii
Yeast artificial chromosome segregation from host chromosomes with similar lengths.
Nucleic acids research 1998;26(21):5011-2.
1998: NO Bukanov; Vadim V Demidov; Peter E Nielsen; Maxim D Frank-Kamenetskii
PD-loop: a complex of duplex DNA with an oligonucleotide.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(10):5516-20.
1998: H Kuhn; Vadim V Demidov; Maxim D Frank-Kamenetskii; Peter E Nielsen
Kinetic sequence discrimination of cationic bis-PNAs upon targeting of double-stranded DNA.
Nucleic acids research 1998;26(2):582-7.
1997: Vadim V Demidov; M V Yavnilovich; Maxim D Frank-Kamenetskii
Kinetic analysis of specificity of duplex DNA targeting by homopyrimidine peptide nucleic acids.
Biophysical journal 1997;72(6):2763-9.
1996: A G Veselkov; Vadim V Demidov; P E Nielson; Maxim D Frank-Kamenetskii
A new class of genome rare cutters.
Nucleic acids research 1996;24(13):2483-7.
1996: A G Veselkov; Vadim V Demidov; Maxim D Frank-Kamenetskii; P E Nielsen
PNA as a rare genome-cutter.
Nature 1996;379(6562):214.
1995: Vadim V Demidov; M V Yavnilovich; B P Belotserkovskii; Maxim D Frank-Kamenetskii; P E Nielsen
Kinetics and mechanism of polyamide ("peptide") nucleic acid binding to duplex DNA.
Proceedings of the National Academy of Sciences of the United States of America 1995;92(7):2637-41.
1995: Konstantin V Klenin; Maxim D Frank-Kamenetskii; Jörg Langowski
Modulation of intramolecular interactions in superhelical DNA by curved sequences: a Monte Carlo simulation study.
Biophysical journal 1995;68(1):81-8.
1995: Maxim D Frank-Kamenetskii; Sergei M Mirkin
Triplex DNA structures.
Annual review of biochemistry 1995;64():65-95.
1994: Vadim V Demidov; D I Cherny; A V Kurakin; M V Yavnilovich; V A Malkov; Maxim D Frank-Kamenetskii; S H Sönnichsen; P E Nielsen
Electron microscopy mapping of oligopurine tracts in duplex DNA by peptide nucleic acid targeting.
Nucleic acids research 1994;22(24):5218-22.
1994: A S Borovik; Maxim D Frank-Kamenetskii
Fractality of DNA texts.
Journal of biomolecular structure & dynamics 1994;12(3):655-69.
1994: Vadim V Demidov; V N Potaman; Maxim D Frank-Kamenetskii; M Egholm; O Buchard; S H Sönnichsen; P E Nielsen
Stability of peptide nucleic acids in human serum and cellular extracts.
Biochemical pharmacology 1994;48(6):1310-3.
1994: D I Cherney; A V Kurakin; V I Lyamichev; Maxim D Frank-Kamenetskii; Vitaly Zinkevich; Keith Firman; P E Nielsen
Electron microscopic studies of sequence-specific recognition of duplex DNA by different ligands.
Journal of molecular recognition : JMR 1994;7(3):171-6.
1993: V Demidov; Maxim D Frank-Kamenetskii; M Egholm; O Buchardt; P E Nielsen
Sequence selective double strand DNA cleavage by peptide nucleic acid (PNA) targeting using nuclease S1.
Nucleic acids research 1993;21(9):2103-7.
1993: B P Belotserkovskii; Maxim D Frank-Kamenetskii
Study of pH-dependent structural transition in telomeric sequences by two-dimensional gel electrophoresis.
Electrophoresis 1993;14(4):266-70.
1993: D I Cherny; V A Malkov; A A Volodin; Maxim D Frank-Kamenetskii
Electron microscopy visualization of oligonucleotide binding to duplex DNA via triplex formation.
Journal of molecular biology 1993;230(2):379-83.
1993: D Y Cherny; B P Belotserkovskii; Maxim D Frank-Kamenetskii; M Egholm; O Buchardt; R H Berg; P E Nielsen
DNA unwinding upon strand-displacement binding of a thymine-substituted polyamide to double-stranded DNA.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(5):1667-70.
1993: V A Malkov; O N Voloshin; V N Soyfer; Maxim D Frank-Kamenetskii
Cation and sequence effects on stability of intermolecular pyrimidine-purine-purine triplex.
Nucleic acids research 1993;21(3):585-91.
1993: V A Malkov; O N Voloshin; A G Veselkov; V M Rostapshov; I Jansen; V N Soyfer; Maxim D Frank-Kamenetskii
Protonated pyrimidine-purine-purine triplex.
Nucleic acids research 1993;21(1):105-11.
1992: A V Vologodskii; Stephen D Levene; Konstantin V Klenin; Maxim D Frank-Kamenetskii; Nicholas R Cozzarelli
Conformational and thermodynamic properties of supercoiled DNA.
Journal of molecular biology 1992;227(4):1224-43.
1992: V A Malkov; V N Soyfer; Maxim D Frank-Kamenetskii
Effect of intermolecular triplex formation on the yield of cyclobutane photodimers in DNA.
Nucleic acids research 1992;20(18):4889-95.
1992: B P Belotserkovskii; M M Krasilnikova; A G Veselkov; Maxim D Frank-Kamenetskii
Kinetic trapping of H-DNA by oligonucleotide binding.
Nucleic acids research 1992;20(8):1903-8.
1992: O N Voloshin; A G Veselkov; B P Belotserkovskii; ON Danilevskaya; M N Pavlova; V N Dobrynin; Maxim D Frank-Kamenetskii
An eclectic DNA structure adopted by human telomeric sequence under superhelical stress and low pH.
Journal of biomolecular structure & dynamics 1992;9(4):643-52.
1992: A V Vologodskii; Maxim D Frank-Kamenetskii
Modeling supercoiled DNA.
Methods in enzymology 1992;211():467-80.
1992: Maxim D Frank-Kamenetskii
Protonated DNA structures.
Methods in enzymology 1992;211():180-91.
1991: A V Lukashin; D B Beglov; Maxim D Frank-Kamenetskii
Allowance for spatial dispersion of dielectric permittivity in polyelectrolyte model of DNA.
Journal of biomolecular structure & dynamics 1991;9(3):517-23.
1991: A V Lukashin; D B Beglov; Maxim D Frank-Kamenetskii
Comparison of different approaches for calculation of polyelectrolyte free energy.
Journal of biomolecular structure & dynamics 1991;8(6):1113-8.
1991: V I Lyamichev; O N Voloshin; Maxim D Frank-Kamenetskii; V N Soyfer
Photofootprinting of DNA triplexes.
Nucleic acids research 1991;19(7):1633-8.
1991: Konstantin V Klenin; A V Vologodskii; V V Anshelevich; A M Dykhne; Maxim D Frank-Kamenetskii
Computer simulation of DNA supercoiling.
Journal of molecular biology 1991;217(3):413-9.
1990: B P Belotserkovskii; A G Veselkov; S A Filippov; V N Dobrynin; Sergei M Mirkin; Maxim D Frank-Kamenetskii
Formation of intramolecular triplex in homopurine-homopyrimidine mirror repeats with point substitutions.
Nucleic acids research 1990;18(22):6621-4.
1990: V I Lyamichev; Maxim D Frank-Kamenetskii; V N Soyfer
Protection against UV-induced pyrimidine dimerization in DNA by triplex formation.
Nature 1990;344(6266):568-70.
1989: V I Lyamichev; Sergei M Mirkin; V P Kumarev; L V Baranova; A V Vologodskii; Maxim D Frank-Kamenetskii
Energetics of the B-H transition in supercoiled DNA carrying d(CT)x.d(AG)x and d(C)n.d(G)n inserts.
Nucleic acids research 1989;17(22):9417-23.
1989: V I Lyamichev; Sergei M Mirkin; ON Danilevskaya; O N Voloshin; S V Balatskaya; V N Dobrynin; S A Filippov; Maxim D Frank-Kamenetskii
An unusual DNA structure detected in a telomeric sequence under superhelical stress and at low pH.
Nature 1989;339(6226):634-7.
1989: A V Lukashin; V V Anshelevich; B R Amirikyan; A I Gragerov; Maxim D Frank-Kamenetskii
Neural network models for promoter recognition.
Journal of biomolecular structure & dynamics 1989;6(6):1123-33.
1989: Konstantin V Klenin; A V Vologodskii; V V Anshelevich; A M Dykhne; Maxim D Frank-Kamenetskii
Variance of writhe for wormlike DNA rings with excluded volume.
Journal of biomolecular structure & dynamics 1989;6(4):707-14.
1989: V V Anshelevich; B R Amirikian; A V Lukashin; Maxim D Frank-Kamenetskii
On the ability of neural networks to perform generalization by induction.
Biological cybernetics 1989;61(2):125-8.
1988: V V Anshelevich; A V Vologodskii; Maxim D Frank-Kamenetskii
A theoretical study of formation of DNA noncanonical structures under negative superhelical stress.
Journal of biomolecular structure & dynamics 1988;6(2):247-59.
1988: O N Voloshin; Sergei M Mirkin; V I Lyamichev; B P Belotserkovskii; Maxim D Frank-Kamenetskii
Chemical probing of homopurine-homopyrimidine mirror repeats in supercoiled DNA.
Nature 1988;333(6172):475-6.
1988: Konstantin V Klenin; A V Vologodskii; V V Anshelevich; A M Dykhne; Maxim D Frank-Kamenetskii
Effect of excluded volume on topological properties of circular DNA.
Journal of biomolecular structure & dynamics 1988;5(6):1173-85.
1988: V I Lyamichev; Sergei M Mirkin; Maxim D Frank-Kamenetskii; C R Cantor
A stable complex between homopyrimidine oligomers and the homologous regions of duplex DNAs.
Nucleic acids research 1988;16(5):2165-78.
1987: Sergei M Mirkin; V I Lyamichev; K N Drushlyak; V N Dobrynin; S A Filippov; Maxim D Frank-Kamenetskii
DNA H form requires a homopurine-homopyrimidine mirror repeat.
Nature 1987;330(6147):495-7.
1987: V I Lyamichev; Sergei M Mirkin; Maxim D Frank-Kamenetskii
Structure of (dG)n.(dC)n under superhelical stress and acid pH.
Journal of biomolecular structure & dynamics 1987;5(2):275-82.
1986: V I Lyamichev; Sergei M Mirkin; Maxim D Frank-Kamenetskii
Structures of homopurine-homopyrimidine tract in superhelical DNA.
Journal of biomolecular structure & dynamics 1986;3(4):667-9.
1985: V I Lyamichev; Sergei M Mirkin; Maxim D Frank-Kamenetskii
A pH-dependent structural transition in the homopurine-homopyrimidine tract in superhelical DNA.
Journal of biomolecular structure & dynamics 1985;3(2):327-38.
1985: Maxim D Frank-Kamenetskii; A V Lukashin; V V Anshelevich
Application of polyelectrolyte theory to the study of the B-Z transition in DNA (1).
Journal of biomolecular structure & dynamics 1985;3(1):35-42.
1985: Maxim D Frank-Kamenetskii; A V Lukashin; V V Anshelevich; A V Vologodskii
Torsional and bending rigidity of the double helix from data on small DNA rings.
Journal of biomolecular structure & dynamics 1985;2(5):1005-12.
1984: A V Vologodskii; B R Amirikyan; Y L Lyubchenko; Maxim D Frank-Kamenetskii
Allowance for heterogeneous stacking in the DNA helix-coil transition theory.
Journal of biomolecular structure & dynamics 1984;2(1):131-48.
1984: Maxim D Frank-Kamenetskii; G I Chogovadze
A linear biopolymer in the vicinity of the triple point. The homopolymer case.
Journal of biomolecular structure & dynamics 1984;1(6):1517-23.
1984: A V Vologodskii; Maxim D Frank-Kamenetskii
Left-handed Z form in superhelical DNA: a theoretical study.
Journal of biomolecular structure & dynamics 1984;1(6):1325-33.
1984: Maxim D Frank-Kamenetskii; A V Vologodskii
Thermodynamics of the B-Z transition in superhelical DNA.
Nature 1984;307(5950):481-2.
1984: V V Anshelevich; A V Vologodskii; A V Lukashin; Maxim D Frank-Kamenetskii
Slow relaxational processes in the melting of linear biopolymers: a theory and its application to nucleic acids.
Biopolymers 1984;23(1):39-58.
1983: A V Vologodskii; Maxim D Frank-Kamenetskii
The relaxation time for a cruciform structure in superhelical DNA.
FEBS letters 1983;160(1-2):173-6.
1983: V I Lyamichev; I G Panyutin; Maxim D Frank-Kamenetskii
Evidence of cruciform structures in superhelical DNA provided by two-dimensional gel electrophoresis.
FEBS letters 1983;153(2):298-302.
1982: A V Vologodskii; Maxim D Frank-Kamenetskii
Theoretical study of cruciform states in superhelical DNAs.
FEBS letters 1982;143(2):257-60.
1981: A V Vologodskii; Maxim D Frank-Kamenetskii
Premelting of superhelical DNA: an expression for superhelical energy.
FEBS letters 1981;131(1):178-80.