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Luda Shlyakhtenko

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Luda S Shlyakhtenko; Alexander A Gall; Yuri L Lyubchenko
Mica functionalization for imaging of DNA and protein-DNA complexes with atomic force microscopy.
Luda S Shlyakhtenko; Atsushi Miyagi; Reuben S Harris; Ming Li; Alexander Y Lushnikov; Yuri L Lyubchenko
Nanoscale structure and dynamics of ABOBEC3G complexes with single-stranded DNA.
Luda S Shlyakhtenko; Atsushi Miyagi; Alexander Y Lushnikov; Yuri L Lyubchenko
Specificity of binding of single-stranded DNA-binding protein to its target.

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All Publications

2013: Luda S Shlyakhtenko; Alexander A Gall; Yuri L Lyubchenko
Mica functionalization for imaging of DNA and protein-DNA complexes with atomic force microscopy.
Methods in molecular biology (Clifton, N.J.) 2013;931():295-312.
2012: Luda S Shlyakhtenko; Atsushi Miyagi; Reuben S Harris; Ming Li; Alexander Y Lushnikov; Yuri L Lyubchenko
Nanoscale structure and dynamics of ABOBEC3G complexes with single-stranded DNA.
Biochemistry 2012;51(32):6432-40.
2012: Luda S Shlyakhtenko; Atsushi Miyagi; Alexander Y Lushnikov; Yuri L Lyubchenko
Specificity of binding of single-stranded DNA-binding protein to its target.
Biochemistry 2012;51(7):1500-9.
2011: Yuri L Lyubchenko; Luda S Shlyakhtenko; Toshio Ando
Imaging of nucleic acids with atomic force microscopy.
Methods (San Diego, Calif.) 2011;54(2):274-83.
2011: Luda S Shlyakhtenko; Alexander Y Lushnikov; Ming Li; Lela Lackey; Reuben S Harris; Yuri L Lyubchenko
Atomic force microscopy studies provide direct evidence for dimerization of the HIV restriction factor APOBEC3G.
The Journal of biological chemistry 2011;286(5):3387-95.
2011: Jing Liu; Songchuan Guo; Mathieu Cinier; Luda S Shlyakhtenko; Yi Shu; Chaoping Chen; Guanxin Shen; Peixuan Guo
Fabrication of stable and RNase-resistant RNA nanoparticles active in gearing the nanomotors for viral DNA packaging.
ACS nano 2011;5(1):237-46.
2010: Mindaugas Zaremba; Amelia Owsicka; Gintautas Tamulaitis; Giedrius Sasnauskas; Luda S Shlyakhtenko; Alexander Y Lushnikov; Yuri L Lyubchenko; Niels Laurens; Bram van den Broek; Gijs J L Wuite; Virginijus Siksnys
DNA synapsis through transient tetramerization triggers cleavage by Ecl18kI restriction enzyme.
Nucleic acids research 2010;38(20):7142-54.
2010: Rajarshi P Ghosh; Rachel A Horowitz-Scherer; Tatiana Nikitina; Luda S Shlyakhtenko; Christopher L Woodcock
MeCP2 binds cooperatively to its substrate and competes with histone H1 for chromatin binding sites.
Molecular and cellular biology 2010;30(19):4656-70.
2009: Luda S Shlyakhtenko; Alexander Y Lushnikov; Yuri L Lyubchenko
Dynamics of nucleosomes revealed by time-lapse atomic force microscopy.
Biochemistry 2009;48(33):7842-8.
2009: Luda S Shlyakhtenko; Jamie Gilmore; Aleksei N Kriatchko; Sushil Kumar; Patrick C Swanson; Yuri L Lyubchenko
Molecular mechanism underlying RAG1/RAG2 synaptic complex formation.
The Journal of biological chemistry 2009;284(31):20956-65.
2009: Yuri L Lyubchenko; Luda S Shlyakhtenko
AFM for analysis of structure and dynamics of DNA and protein-DNA complexes.
Methods (San Diego, Calif.) 2009;47(3):206-13.
2009: Yuri L Lyubchenko; Luda S Shlyakhtenko; Alexander A Gall
Atomic force microscopy imaging and probing of DNA, proteins, and protein DNA complexes: silatrane surface chemistry.
Methods in molecular biology (Clifton, N.J.) 2009;543():337-51.
2008: Igor B Nazarov; Luda S Shlyakhtenko; Yuri L Lyubchenko; Irina A Zalenskaya; Andrei O Zalensky
Sperm chromatin released by nucleases.
Systems biology in reproductive medicine 2008;54(1):37-46.
2007: Luda S Shlyakhtenko; Jamie Gilmore; Alex Portillo; Gintautas Tamulaitis; Virginijus Siksnys; Yuri L Lyubchenko
Direct visualization of the EcoRII-DNA triple synaptic complex by atomic force microscopy.
Biochemistry 2007;46(39):11128-36.
2007: Dong Wang; Scott C Miller; Luda S Shlyakhtenko; Alexander M Portillo; Xin-Ming Liu; Kongnara Papangkorn; Pavla Kopecková; Yuri L Lyubchenko; William I Higuchi; Jindrich Kopecek
Osteotropic Peptide that differentiates functional domains of the skeleton.
Bioconjugate chemistry 2007;18(5):1375-8.
2007: Luda S Shlyakhtenko; Bin Yuan; Sharareh Emadi; Yuri L Lyubchenko; Michael R Sierks
Single-molecule selection and recovery of structure-specific antibodies using atomic force microscopy.
Nanomedicine : nanotechnology, biology, and medicine 2007;3(3):192-7.
2007: Huanyu Dou; Justin Morehead; Christopher J Destache; Jeffrey D Kingsley; Luda S Shlyakhtenko; You Zhou; Mahesh Chaubal; Jane Werling; James Kipp; Barrett Rabinow; Howard E Gendelman
Laboratory investigations for the morphologic, pharmacokinetic, and anti-retroviral properties of indinavir nanoparticles in human monocyte-derived macrophages.
Virology 2007;358(1):148-58.
2007: Alexey V Krasnoslobodtsev; Luda S Shlyakhtenko; Yuri L Lyubchenko
Probing Interactions within the synaptic DNA-SfiI complex by AFM force spectroscopy.
Journal of molecular biology 2007;365(5):1407-16.
2006: Yuri L Lyubchenko; Simon Sherman; Luda S Shlyakhtenko; Vladimir Uversky
Nanoimaging for protein misfolding and related diseases.
Journal of cellular biochemistry 2006;99(1):52-70.
2006: Tatiana K Bronich; Satya Bontha; Luda S Shlyakhtenko; Lev Bromberg; T Alan Hatton; Alexander Kabanov
Template-assisted synthesis of nanogels from Pluronic-modified poly(acrylic acid).
Journal of drug targeting 2006;14(6):357-66.
2005: Alexey V Kransnoslobodtsev; Luda S Shlyakhtenko; Egor Ukraintsev; Tatiana O Zaikova; John F W Keana; Yuri L Lyubchenko
Nanomedicine and protein misfolding diseases.
Nanomedicine : nanotechnology, biology, and medicine 2005;1(4):300-5.
2005: Tatiana K Bronich; Paul A Keifer; Luda S Shlyakhtenko; Alexander Kabanov
Polymer micelle with cross-linked ionic core.
Journal of the American Chemical Society 2005;127(23):8236-7.
2005: Vladimir N Potaman; Luda S Shlyakhtenko; Elena A Oussatcheva; Yuri L Lyubchenko; Viatcheslav A Soldatenkov
Specific binding of poly(ADP-ribose) polymerase-1 to cruciform hairpins.
Journal of molecular biology 2005;348(3):609-15.
2005: Irina Lonskaya; Vladimir N Potaman; Luda S Shlyakhtenko; Elena A Oussatcheva; Yuri L Lyubchenko; Viatcheslav A Soldatenkov
Regulation of poly(ADP-ribose) polymerase-1 by DNA structure-specific binding.
The Journal of biological chemistry 2005;280(17):17076-83.
2004: Vladimir N Potaman; Elena A Oussatcheva; Yuri L Lyubchenko; Luda S Shlyakhtenko; S I Bidichandani; Tetsuo Ashizawa; Richard R Sinden
Length-dependent structure formation in Friedreich ataxia (GAA)n*(TTC)n repeats at neutral pH.
Nucleic acids research 2004;32(3):1224-31.
2003: Luda S Shlyakhtenko; Alexander A Gall; Alexander Filonov; Zoran Cerovac; Alexander Y Lushnikov; Yuri L Lyubchenko
Silatrane-based surface chemistry for immobilization of DNA, protein-DNA complexes and other biological materials.
Ultramicroscopy 2003;97(1-4):279-87.
2003: Luda S Shlyakhtenko; Lela Miloseska; Vladimir N Potaman; Richard R Sinden; Yuri L Lyubchenko
Intersegmental interactions in supercoiled DNA: atomic force microscope study.
Ultramicroscopy 2003;97(1-4):263-70.
2003: Vladimir N Potaman; John J Bissler; Vera I Hashem; Elena A Oussatcheva; Lu Lu; Luda S Shlyakhtenko; Yuri L Lyubchenko; Tohru Matsuura; Tetsuo Ashizawa; Michael Leffak; Craig J Benham; Richard R Sinden
Unpaired structures in SCA10 (ATTCT)n.(AGAAT)n repeats.
Journal of molecular biology 2003;326(4):1095-111.
2002: Claire Gaillard; Luda S Shlyakhtenko; Yuri L Lyubchenko; François Strauss
Structural analysis of hemicatenated DNA loops.
BMC structural biology 2002;2():7.
2002: Yuri L Lyubchenko; Luda S Shlyakhtenko; Melinda Binus; Claire Gaillard; François Strauss
Visualization of hemiknot DNA structure with an atomic force microscope.
Nucleic acids research 2002;30(22):4902-9.
2002: Jiya G Yodh; Neal W Woodbury; Luda S Shlyakhtenko; Yuri L Lyubchenko; D Lohr
Mapping nucleosome locations on the 208-12 by AFM provides clear evidence for cooperativity in array occupation.
Biochemistry 2002;41(11):3565-74.
2002: Richard R Sinden; Vladimir N Potaman; Elena A Oussatcheva; Christopher E Pearson; Yuri L Lyubchenko; Luda S Shlyakhtenko
Triplet repeat DNA structures and human genetic disease: dynamic mutations from dynamic DNA.
Journal of biosciences 2002;27(1 Suppl 1):53-65.
2001: Yuri L Lyubchenko; Alexander A Gall; Luda S Shlyakhtenko
Atomic force microscopy of DNA and protein-DNA complexes using functionalized mica substrates.
Methods in molecular biology (Clifton, N.J.) 2001;148():569-78.
2000: Luda S Shlyakhtenko; Vladimir N Potaman; Richard R Sinden; Alexander A Gall; Yuri L Lyubchenko
Structure and dynamics of three-way DNA junctions: atomic force microscopy studies.
Nucleic acids research 2000;28(18):3472-7.
2000: Luda S Shlyakhtenko; Peggy Hsieh; M Grigoriev; Vladimir N Potaman; Richard R Sinden; Yuri L Lyubchenko
A cruciform structural transition provides a molecular switch for chromosome structure and dynamics.
Journal of molecular biology 2000;296(5):1169-73.
1999: Jiya G Yodh; Yuri L Lyubchenko; Luda S Shlyakhtenko; Neal W Woodbury; D Lohr
Evidence for nonrandom behavior in 208-12 subsaturated nucleosomal array populations analyzed by AFM.
Biochemistry 1999;38(48):15756-63.
1999: Elena A Oussatcheva; Luda S Shlyakhtenko; R Glass; Richard R Sinden; Yuri L Lyubchenko; Vladimir N Potaman
Structure of branched DNA molecules: gel retardation and atomic force microscopy studies.
Journal of molecular biology 1999;292(1):75-86.
1999: Luda S Shlyakhtenko; Alexander A Gall; J J Weimer; D D Hawn; Yuri L Lyubchenko
Atomic force microscopy imaging of DNA covalently immobilized on a functionalized mica substrate.
Biophysical journal 1999;77(1):568-76.
1998: A Herbert; Markus Schade; Ky Lowenhaupt; J Alfken; thomas schwartz; Luda S Shlyakhtenko; Yuri L Lyubchenko; Alexander Rich
The Zalpha domain from human ADAR1 binds to the Z-DNA conformer of many different sequences.
Nucleic acids research 1998;26(15):3486-93.
1998: Luda S Shlyakhtenko; Vladimir N Potaman; Richard R Sinden; Yuri L Lyubchenko
Structure and dynamics of supercoil-stabilized DNA cruciforms.
Journal of molecular biology 1998;280(1):61-72.
1997: Yuri L Lyubchenko; Luda S Shlyakhtenko; T Aki; S Adhya
Atomic force microscopic demonstration of DNA looping by GalR and HU.
Nucleic acids research 1997;25(4):873-6.
1997: Yuri L Lyubchenko; Luda S Shlyakhtenko
Visualization of supercoiled DNA with atomic force microscopy in situ.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(2):496-501.
1996: D Rekesh; Yuri L Lyubchenko; Luda S Shlyakhtenko; Stuart Lindsey
Scanning tunneling microscopy of mercapto-hexyl-oligonucleotides attached to gold.
Biophysical journal 1996;71(2):1079-86.
1996: Yuri L Lyubchenko; R E Blankenship; A A Gall; Stuart Lindsey; O Thiemann; L Simpson; Luda S Shlyakhtenko
Atomic force microscopy of DNA, nucleoproteins and cellular complexes: the use of functionalized substrates.
Scanning microscopy. Supplement 1996;10():97-107; discussion 107-9.
1994: Luda S Shlyakhtenko; Ettore Appella; Rodney E Harrington; I Kutyavin; Yuri L Lyubchenko
Structure of three-way DNA junctions. 2. Effects of extra bases and mismatches.
Journal of biomolecular structure & dynamics 1994;12(1):131-43.
1994: Luda S Shlyakhtenko; D Rekesh; Stuart Lindsey; I Kutyavin; Ettore Appella; Rodney E Harrington; Yuri L Lyubchenko
Structure of three-way DNA junctions. 1. Non-planar DNA geometry.
Journal of biomolecular structure & dynamics 1994;11(6):1175-89.
1993: T W Jing; A M Jeffrey; J A DeRose; Yuri L Lyubchenko; Luda S Shlyakhtenko; Rodney E Harrington; Ettore Appella; J Larsen; A Vaught; D Rekesh
Structure of hydrated oligonucleotides studied by in situ scanning tunneling microscopy.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(19):8934-8.
1993: Yuri L Lyubchenko; Luda S Shlyakhtenko; Ettore Appella; Rodney E Harrington
CA runs increase DNA flexibility in the complex of lambda Cro protein with the OR3 site.
Biochemistry 1993;32(15):4121-7.
1993: Yuri L Lyubchenko; Luda S Shlyakhtenko; R Harrington; P Oden; Stuart Lindsey
Atomic force microscopy of long DNA: imaging in air and under water.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(6):2137-40.
1992: Yuri L Lyubchenko; A A Gall; Luda S Shlyakhtenko; Rodney E Harrington; Bertram L Jacobs; P I Oden; Stuart Lindsey
Atomic force microscopy imaging of double stranded DNA and RNA.
Journal of biomolecular structure & dynamics 1992;10(3):589-606.
1992: Stuart Lindsey; N J Tao; J A DeRose; P I Oden; Rodney E Harrington; Luda S Shlyakhtenko
Potentiostatic deposition of DNA for scanning probe microscopy.
Biophysical journal 1992;61(6):1570-84.
1991: Yuri L Lyubchenko; Luda S Shlyakhtenko; B Chernov; Rodney E Harrington
DNA bending induced by Cro protein binding as demonstrated by gel electrophoresis.
Proceedings of the National Academy of Sciences of the United States of America 1991;88(12):5331-4.
1989: O N Voloshin; Luda S Shlyakhtenko
Localization of melted regions in supercoiled DNA.
FEBS letters 1989;243(2):377-80.
1988: Luda S Shlyakhtenko
Early melting of supercoiled DNA.
Nucleic acids research 1988;16(8):3269-81.
1987: I V Razlutskii; Luda S Shlyakhtenko
The effect of nucleotide substitution on DNA denaturation profiles.
Nucleic acids research 1987;15(16):6665-76.
1981: Vladimir N Potaman; D G Alexeev; A Z Rabinovich; Luda S Shlyakhtenko
Study of DNA films by the CD, X-ray and polarization microscopy techniques.
Nucleic acids research 1981;9(1):55-64.