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  • 2020
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  • Yuri L Lyubchenko
2020

AFM Probing of Amyloid-Beta 42 Dimers and Trimers

Maity, S. & Lyubchenko, Y. L., Apr 24 2020, In : Frontiers in Molecular Biosciences. 7, 69.

Research output: Contribution to journalArticle

Open Access

Atomic force microscopy-based characterization of the interaction of PriA helicase with stalledDNA replication forks

Wang, Y., Sun, Z., Bianco, P. R. & Lyubchenko, Y. L., May 1 2020, In : Journal of Biological Chemistry. 295, 18, p. 6043-6052 10 p.

Research output: Contribution to journalArticle

Interaction of aβ42 with membranes triggers the self-assembly into oligomers

Banerjee, S., Hashemi, M., Zagorski, K. & Lyubchenko, Y. L., Feb 1 2020, In : International journal of molecular sciences. 21, 3, 1129.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Molecular Model for the Surface-Catalyzed Protein Self-Assembly

Pan, Y., Banerjee, S., Zagorski, K., Shlyakhtenko, L. S., Kolomeisky, A. B. & Lyubchenko, Y. L., Jan 16 2020, In : Journal of Physical Chemistry B. 124, 2, p. 366-372 7 p.

Research output: Contribution to journalArticle

1 Scopus citations

Nanoscale interaction of RecG with mobile fork DNA

Sun, Z., Wang, Y., Bianco, P. R. & Lyubchenko, Y. L., Mar 2020, In : Nanoscale Advances. 2, 3, p. 1318-1324 7 p.

Research output: Contribution to journalArticle

Open Access

Neuronal-derived extracellular vesicles are enriched in the brain and serum of HIV-1 transgenic rats

Dagur, R. S., Liao, K., Sil, S., Niu, F., Sun, Z., Lyubchenko, Y. L., Peeples, E. S., Hu, G. & Buch, S., Jan 1 2020, In : Journal of Extracellular Vesicles. 9, 1, 1703249.

Research output: Contribution to journalArticle

Open Access
2019

Assembly of α-synuclein aggregates on phospholipid bilayers

Lv, Z., Hashemi, M., Banerjee, S., Zagorski, K., Rochet, J. C. & Lyubchenko, Y. L., Sep 2019, In : Biochimica et Biophysica Acta - Proteins and Proteomics. 1867, 9, p. 802-812 11 p.

Research output: Contribution to journalArticle

5 Scopus citations

Force clamp approach for characterization of nano-assembly in amyloid beta 42 dimer

Maity, S. & Lyubchenko, Y. L., Jul 7 2019, In : Nanoscale. 11, 25, p. 12259-12265 7 p.

Research output: Contribution to journalArticle

1 Scopus citations

Insight into the dynamics of APOBEC3G protein in complexes with DNA assessed by high speed AFM

Pan, Y., Shlyakhtenko, L. S. & Lyubchenko, Y. L., Jan 1 2019, In : Nanoscale Advances. 1, 10, p. 4016-4024 9 p.

Research output: Contribution to journalArticle

Open Access

Label-free characterization of exosome via surface enhanced Raman spectroscopy for the early detection of pancreatic cancer

Carmicheal, J., Hayashi, C., Huang, X., Liu, L., Lu, Y., Krasnoslobodtsev, A., Lushnikov, A., Kshirsagar, P. G., Patel, A., Jain, M., Lyubchenko, Y. L., Lu, Y., Batra, S. K. & Kaur, S., Feb 2019, In : Nanomedicine: Nanotechnology, Biology, and Medicine. 16, p. 88-96 9 p.

Research output: Contribution to journalArticle

12 Scopus citations

Probing the structure and dynamics of nucleosomes using atomic force microscopy imaging

Stumme-Diers, M. P., Stormberg, T., Sun, Z. & Lyubchenko, Y. L., Jan 2019, In : Journal of Visualized Experiments. 2019, 143, e58820.

Research output: Contribution to journalArticle

1 Scopus citations

Sequence-dependent nucleosome nanoscale structure characterized by atomic force microscopy

Stormberg, T., Stumme-Diers, M. & Lyubchenko, Y. L., Jan 1 2019, In : FASEB Journal. 33, 10, p. 10916-10923 8 p.

Research output: Contribution to journalArticle

Spontaneous self-assembly of amyloid β (1-40) into dimers

Hashemi, M., Zhang, Y., Lv, Z. & Lyubchenko, Y. L., Jan 1 2019, In : Nanoscale Advances. 1, 10, p. 3892-3899 8 p.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations
2018

Assembly of centromere chromatin for characterization by high-speed time-lapse atomic force microscopy

Stumme-Diers, M. P., Banerjee, S., Sun, Z. & Lyubchenko, Y. L., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 225-242 18 p. (Methods in Molecular Biology; vol. 1814).

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Scopus citations

Astrocyte EV-Induced lincRNA-Cox2 Regulates Microglial Phagocytosis: Implications for Morphine-Mediated Neurodegeneration

Hu, G., Liao, K., Niu, F., Yang, L., Dallon, B. W., Callen, S., Tian, C., Shu, J., Cui, J., Sun, Z., Lyubchenko, Y. L., Ka, M., Chen, X. M. & Buch, S., Dec 7 2018, In : Molecular Therapy - Nucleic Acids. 13, p. 450-463 14 p.

Research output: Contribution to journalArticle

13 Scopus citations

Direct AFM visualization of the nanoscale dynamics of biomolecular complexes

Lyubchenko, Y. L., Aug 20 2018, In : Journal of Physics D: Applied Physics. 51, 40, 403001.

Research output: Contribution to journalReview article

4 Scopus citations

Dynamics of the Interaction of RecG Protein with Stalled Replication Forks

Sun, Z., Hashemi, M., Warren, G., Bianco, P. R. & Lyubchenko, Y. L., Apr 3 2018, In : Biochemistry. 57, 13, p. 1967-1976 10 p.

Research output: Contribution to journalArticle

6 Scopus citations

High-speed atomic force microscopy reveals structural dynamics of α -synuclein monomers and dimers

Zhang, Y., Hashemi, M., Lv, Z., Williams, B., Popov, K. I., Dokholyan, N. V. & Lyubchenko, Y. L., Mar 28 2018, In : Journal of Chemical Physics. 148, 12, 123322.

Research output: Contribution to journalArticle

17 Scopus citations

Nanoscale dynamics of centromere nucleosomes and the critical roles of CENP-A

Stumme-Diers, M. P., Banerjee, S., Hashemi, M., Sun, Z. & Lyubchenko, Y. L., Jan 1 2018, In : Nucleic acids research. 46, 1, p. 94-103 10 p.

Research output: Contribution to journalArticle

10 Scopus citations

Polymer nanoarray approach for the characterization of biomolecular interactions

Maity, S., Viazovkina, E., Gall, A. & Lyubchenko, Y. L., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 63-74 12 p. (Methods in Molecular Biology; vol. 1814).

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Scopus citations

Preface

Lyubchenko, Y. L., Jan 1 2018, In : Methods in Molecular Biology. 1814, p. v-ix

Research output: Contribution to journalEditorial

Probing Intermolecular Interactions within the Amyloid β Trimer Using a Tethered Polymer Nanoarray

Maity, S., Pramanik, A. & Lyubchenko, Y. L., Aug 15 2018, In : Bioconjugate Chemistry. 29, 8, p. 2755-2762 8 p.

Research output: Contribution to journalArticle

4 Scopus citations

Supported lipid bilayers for atomic force microscopy studies

Lv, Z., Banerjee, S., Zagorski, K. & Lyubchenko, Y. L., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 129-143 15 p. (Methods in Molecular Biology; vol. 1814).

Research output: Chapter in Book/Report/Conference proceedingChapter

9 Scopus citations

The Enzymatic Activity of APOBE3G Multimers

Pan, Y., Zagorski, K., Shlyakhtenko, L. S. & Lyubchenko, Y. L., Dec 1 2018, In : Scientific reports. 8, 1, 17953.

Research output: Contribution to journalArticle

2 Scopus citations
2017

An introduction to single molecule biophysics

Lyubchenko, Y. L., Jan 1 2017, CRC Press. 234 p.

Research output: Book/ReportBook

2 Scopus citations

A novel pathway for amyloids self-assembly in aggregates at nanomolar concentration mediated by the interaction with surfaces

Banerjee, S., Hashemi, M., Lv, Z., Maity, S., Rochet, J. C. & Lyubchenko, Y. L., Mar 30 2017, In : Scientific reports. 7, 45592.

Research output: Contribution to journalArticle

19 Scopus citations

Atomic force microscope for topographic studies

Lyubchenko, Y. L., Jan 1 2017, An Introduction to Single Molecule Biophysics. CRC Press, p. 21-78 58 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Computational Model and Dynamics of Monomeric Full-Length APOBEC3G

Gorle, S., Pan, Y., Sun, Z., Shlyakhtenko, L. S., Harris, R. S., Lyubchenko, Y. L. & Vuković, L., Nov 22 2017, In : ACS Central Science. 3, 11, p. 1180-1188 9 p.

Research output: Contribution to journalArticle

10 Scopus citations

Magnetic tweezers

Bianco, P. R., Lyubchenko, Y. L. & Sun, Z., Jan 1 2017, An Introduction to Single Molecule Biophysics. CRC Press, p. 115-139 25 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Nano-Assembly of amyloid β peptide: Role of the hairpin fold

Maity, S., Hashemi, M. & Lyubchenko, Y. L., Dec 1 2017, In : Scientific reports. 7, 1, 2344.

Research output: Contribution to journalArticle

13 Scopus citations

Nanoscale Characterization of Interaction of APOBEC3G with RNA

Pan, Y., Sun, Z., Maiti, A., Kanai, T., Matsuo, H., Li, M., Harris, R. S., Shlyakhtenko, L. S. & Lyubchenko, Y. L., Mar 14 2017, In : Biochemistry. 56, 10, p. 1473-1481 9 p.

Research output: Contribution to journalArticle

10 Scopus citations

Nanoscale Dynamics of Amyloid β-42 Oligomers As Revealed by High-Speed Atomic Force Microscopy

Banerjee, S., Sun, Z., Hayden, E. Y., Teplow, D. B. & Lyubchenko, Y. L., Dec 26 2017, In : ACS Nano. 11, 12, p. 12202-12209 8 p.

Research output: Contribution to journalArticle

36 Scopus citations

Preface

Lyubchenko, Y. L., Jan 1 2017, An Introduction to Single Molecule Biophysics. CRC Press, p. ix-xi

Research output: Chapter in Book/Report/Conference proceedingForeword/postscript

Single-molecule probing of amyloid nano-ensembles using the polymer nanoarray approach

Maity, S., Viazovkina, E., Gall, A. & Lyubchenko, Y. L., Jan 1 2017, In : Physical Chemistry Chemical Physics. 19, 25, p. 16387-16394 8 p.

Research output: Contribution to journalArticle

5 Scopus citations

SSB and the RecG DNA helicase: an intimate association to rescue a stalled replication fork

Bianco, P. R. & Lyubchenko, Y. L., Apr 1 2017, In : Protein Science. 26, 4, p. 638-649 12 p.

Research output: Contribution to journalReview article

14 Scopus citations
2016

Atomic force microscopy imaging and probing of amyloid nanoaggregates

Lyubchenko, Y. L. & Shlyakhtenko, L. S., Feb 24 2016, Handbook of Clinical Nanomedicine: Nanoparticles, Imaging, Therapy and Clinical Applications. Pan Stanford Publishing Pte. Ltd., Vol. 1. p. 589-616 28 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Scopus citations

Effect of acidic pH on the stability of α-synuclein dimers

Lv, Z., Krasnoslobodtsev, A. V., Zhang, Y., Ysselstein, D., Rochet, J. C., Blanchard, S. C. & Lyubchenko, Y. L., Oct 1 2016, In : Biopolymers. p. 715-724 10 p.

Research output: Contribution to journalArticle

11 Scopus citations

Imaging of DNA and protein–DNA complexes with atomic force microscopy

Lyubchenko, Y. L. & Shlyakhtenko, L. S., Jan 1 2016, In : Critical Reviews in Eukaryotic Gene Expression. 26, 1, p. 63-96 34 p.

Research output: Contribution to journalReview article

18 Scopus citations

Nanoimaging for nanomedicine

Lyubchenko, Y. L., Zhang, Y., Krasnoslobodtsev, A. V. & Rochet, J. C., Feb 24 2016, Handbook of Clinical Nanomedicine: Nanoparticles, Imaging, Therapy and Clinical Applications. Pan Stanford Publishing Pte. Ltd., Vol. 1. p. 465-492 28 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Scopus citations

Nonnative SOD1 trimer is toxic to motor neurons in a model of amyotrophic lateral sclerosis

Proctor, E. A., Fee, L., Tao, Y., Redler, R. L., Fay, J. M., Zhang, Y., Lv, Z., Mercer, I. P., Deshmukh, M., Lyubchenko, Y. L. & Dokholyan, N. V., Jan 19 2016, In : Proceedings of the National Academy of Sciences of the United States of America. 113, 3, p. 614-619 6 p.

Research output: Contribution to journalArticle

48 Scopus citations

Polymorphism of amyloid fibrils formed by a peptide from the yeast prion protein Sup35: AFM and Tip-Enhanced Raman Scattering studies

Krasnoslobodtsev, A. V., Deckert-Gaudig, T., Zhang, Y., Deckert, V. & Lyubchenko, Y. L., Jun 1 2016, In : Ultramicroscopy. 165, p. 26-33 8 p.

Research output: Contribution to journalArticle

14 Scopus citations

Probing of miniPEGγ-PNA-DNA Hybrid Duplex Stability with AFM Force Spectroscopy

Dutta, S., Armitage, B. A. & Lyubchenko, Y. L., Mar 15 2016, In : Biochemistry. 55, 10, p. 1523-1528 6 p.

Research output: Contribution to journalArticle

9 Scopus citations

Self-assembly of the full-length amyloid Aβ42 protein in dimers

Zhang, Y., Hashemi, M., Lv, Z. & Lyubchenko, Y. L., Dec 7 2016, In : Nanoscale. 8, 45, p. 18928-18937 10 p.

Research output: Contribution to journalArticle

24 Scopus citations

Single-Molecule Force Spectroscopy Studies of APOBEC3A-Single-Stranded DNA Complexes

Shlyakhtenko, L. S., Dutta, S., Li, M., Harris, R. S. & Lyubchenko, Y. L., Jun 7 2016, In : Biochemistry. 55, 22, p. 3102-3106 5 p.

Research output: Contribution to journalArticle

5 Scopus citations