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Available Instruments for Analyzing Molecular Dynamics Trajectories.

The open biochemistry journal

Likhachev IV, Balabaev NK, Galzitskaya OV.
PMID: 27053964
Open Biochem J. 2016 Mar 14;10:1-11. doi: 10.2174/1874091X01610010001. eCollection 2016.

Molecular dynamics trajectories are the result of molecular dynamics simulations. Trajectories are sequential snapshots of simulated molecular system which represents atomic coordinates at specific time periods. Based on the definition, in a text format trajectory files are characterized by...

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Likhachev IV, Balabaev NK, Galzitskaya OV. Available Instruments for Analyzing Molecular Dynamics Trajectories. Open Biochem J. 2016;10:1-11doi: 10.2174/1874091X01610010001.
Likhachev, I. V., Balabaev, N. K., & Galzitskaya, O. V. (2016). Available Instruments for Analyzing Molecular Dynamics Trajectories. The open biochemistry journal, 101-11. https://doi.org/10.2174/1874091X01610010001
Likhachev, I V, et al. "Available Instruments for Analyzing Molecular Dynamics Trajectories." The open biochemistry journal vol. 10 (2016): 1-11. doi: https://doi.org/10.2174/1874091X01610010001
Likhachev IV, Balabaev NK, Galzitskaya OV. Available Instruments for Analyzing Molecular Dynamics Trajectories. Open Biochem J. 2016 Mar 14;10:1-11. doi: 10.2174/1874091X01610010001. eCollection 2016. PMID: 27053964; PMCID: PMC4797681.
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Signal transfer in human protein tyrosine phosphatase PTP1B from allosteric inhibitor P00058.

Journal of biomolecular structure & dynamics

Chirgadze YN, Battaile KP, Likhachev IV, Balabaev NK, Gordon RD, Romanov V, Lin A, Karisch R, Lam R, Ruzanov M, Brazhnikov EV, Pai EF, Neel BG, Chirgadze NY.
PMID: 34705594
J Biomol Struct Dyn. 2021 Oct 27;1-10. doi: 10.1080/07391102.2021.1994879. Epub 2021 Oct 27.

Protein tyrosine phosphatases constitute a family of cytosolic and receptor-like signal transducing enzymes that catalyze the hydrolysis of phospho-tyrosine residues of phosphorylated proteins. PTP1B, encoded by

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Chirgadze YN, Battaile KP, Likhachev IV, et al. Signal transfer in human protein tyrosine phosphatase PTP1B from allosteric inhibitor P00058. J Biomol Struct Dyn. 2021;1-10doi: 10.1080/07391102.2021.1994879.
Chirgadze, Y. N., Battaile, K. P., Likhachev, I. V., Balabaev, N. K., Gordon, R. D., Romanov, V., Lin, A., Karisch, R., Lam, R., Ruzanov, M., Brazhnikov, E. V., Pai, E. F., Neel, B. G., & Chirgadze, N. Y. (2021). Signal transfer in human protein tyrosine phosphatase PTP1B from allosteric inhibitor P00058. Journal of biomolecular structure & dynamics, 1-10. https://doi.org/10.1080/07391102.2021.1994879
Chirgadze, Yuri N, et al. "Signal transfer in human protein tyrosine phosphatase PTP1B from allosteric inhibitor P00058." Journal of biomolecular structure & dynamics vol. (2021): 1-10. doi: https://doi.org/10.1080/07391102.2021.1994879
Chirgadze YN, Battaile KP, Likhachev IV, Balabaev NK, Gordon RD, Romanov V, Lin A, Karisch R, Lam R, Ruzanov M, Brazhnikov EV, Pai EF, Neel BG, Chirgadze NY. Signal transfer in human protein tyrosine phosphatase PTP1B from allosteric inhibitor P00058. J Biomol Struct Dyn. 2021 Oct 27;1-10. doi: 10.1080/07391102.2021.1994879. Epub 2021 Oct 27. PMID: 34705594.
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Personalization by criteria of blood plasma influence on cell population: what can stem cells and their derivatives meet with after their introduction into an organism.

Journal of stem cells & regenerative medicine

Kordium V, Ruban T, Sukhorada O, Gulko T, Likhacheva L, Lysenko S, Deryabina O.
PMID: 24692975
J Stem Cells Regen Med. 2007 May 16;2(1):165-6. eCollection 2007.

No abstract available.

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Kordium V, Ruban T, Sukhorada O, et al. Personalization by criteria of blood plasma influence on cell population: what can stem cells and their derivatives meet with after their introduction into an organism. J Stem Cells Regen Med. 2007;2(1):165-6
Kordium, V., Ruban, T., Sukhorada, O., Gulko, T., Likhacheva, L., Lysenko, S., & Deryabina, O. (2007). Personalization by criteria of blood plasma influence on cell population: what can stem cells and their derivatives meet with after their introduction into an organism. Journal of stem cells & regenerative medicine, 2(1), 165-6.
Kordium, V, et al. "Personalization by criteria of blood plasma influence on cell population: what can stem cells and their derivatives meet with after their introduction into an organism." Journal of stem cells & regenerative medicine vol. 2,1 (2007): 165-6.
Kordium V, Ruban T, Sukhorada O, Gulko T, Likhacheva L, Lysenko S, Deryabina O. Personalization by criteria of blood plasma influence on cell population: what can stem cells and their derivatives meet with after their introduction into an organism. J Stem Cells Regen Med. 2007 May 16;2(1):165-6. eCollection 2007. PMID: 24692975.
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Dynamics, kinetics, and transport properties of the one-dimensional mass-disordered harmonic lattice.

Physical review. E, Statistical, nonlinear, and soft matter physics

Likhachev VN, Vinogradov GA, Astakhova TY, Yakovenko AE.
PMID: 16486308
Phys Rev E Stat Nonlin Soft Matter Phys. 2006 Jan;73(1):016701. doi: 10.1103/PhysRevE.73.016701. Epub 2006 Jan 09.

In the present paper we thoroughly investigated the dynamics, kinetics, and the transport properties of the one-dimensional (1D) mass-disordered lattice of harmonic oscillators with the number of particles N < or =5000. The thermostat is simulated by the Langevin...

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Likhachev VN, Vinogradov GA, Astakhova TY, et al. Dynamics, kinetics, and transport properties of the one-dimensional mass-disordered harmonic lattice. Phys Rev E Stat Nonlin Soft Matter Phys. 2006;73(1):016701doi: 10.1103/PhysRevE.73.016701.
Likhachev, V. N., Vinogradov, G. A., Astakhova, T. Y., & Yakovenko, A. E. (2006). Dynamics, kinetics, and transport properties of the one-dimensional mass-disordered harmonic lattice. Physical review. E, Statistical, nonlinear, and soft matter physics, 73(1), 016701. https://doi.org/10.1103/PhysRevE.73.016701
Likhachev, Vladimir N, et al. "Dynamics, kinetics, and transport properties of the one-dimensional mass-disordered harmonic lattice." Physical review. E, Statistical, nonlinear, and soft matter physics vol. 73,1 (2006): 016701. doi: https://doi.org/10.1103/PhysRevE.73.016701
Likhachev VN, Vinogradov GA, Astakhova TY, Yakovenko AE. Dynamics, kinetics, and transport properties of the one-dimensional mass-disordered harmonic lattice. Phys Rev E Stat Nonlin Soft Matter Phys. 2006 Jan;73(1):016701. doi: 10.1103/PhysRevE.73.016701. Epub 2006 Jan 09. PMID: 16486308.
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Thermal equation of state of solid naphthalene to 13 GPa and 773 K: in situ X-ray diffraction study and first principles calculations.

The Journal of chemical physics

Likhacheva AY, Rashchenko SV, Chanyshev AD, Inerbaev TM, Litasov KD, Kilin DS.
PMID: 24784288
J Chem Phys. 2014 Apr 28;140(16):164508. doi: 10.1063/1.4871741.

In a wide range of P-T conditions, such fundamental characteristics as compressibility and thermoelastic properties remain unknown for most classes of organic compounds. Here we attempt to clarify this issue by the example of naphthalene as a model representative...

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Likhacheva AY, Rashchenko SV, Chanyshev AD, et al. Thermal equation of state of solid naphthalene to 13 GPa and 773 K: in situ X-ray diffraction study and first principles calculations. J Chem Phys. 2014;140(16):164508doi: 10.1063/1.4871741.
Likhacheva, A. Y., Rashchenko, S. V., Chanyshev, A. D., Inerbaev, T. M., Litasov, K. D., & Kilin, D. S. (2014). Thermal equation of state of solid naphthalene to 13 GPa and 773 K: in situ X-ray diffraction study and first principles calculations. The Journal of chemical physics, 140(16), 164508. https://doi.org/10.1063/1.4871741
Likhacheva, Anna Y, et al. "Thermal equation of state of solid naphthalene to 13 GPa and 773 K: in situ X-ray diffraction study and first principles calculations." The Journal of chemical physics vol. 140,16 (2014): 164508. doi: https://doi.org/10.1063/1.4871741
Likhacheva AY, Rashchenko SV, Chanyshev AD, Inerbaev TM, Litasov KD, Kilin DS. Thermal equation of state of solid naphthalene to 13 GPa and 773 K: in situ X-ray diffraction study and first principles calculations. J Chem Phys. 2014 Apr 28;140(16):164508. doi: 10.1063/1.4871741. PMID: 24784288.
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In Reply to Aronowitz.

International journal of radiation oncology, biology, physics

Likhacheva A, Mitin T, Khmelevsky E.
PMID: 28463174
Int J Radiat Oncol Biol Phys. 2017 Jun 01;98(2):484. doi: 10.1016/j.ijrobp.2017.02.033.

No abstract available.

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Likhacheva A, Mitin T, Khmelevsky E. In Reply to Aronowitz. Int J Radiat Oncol Biol Phys. 2017;98(2):484doi: 10.1016/j.ijrobp.2017.02.033.
Likhacheva, A., Mitin, T., & Khmelevsky, E. (2017). In Reply to Aronowitz. International journal of radiation oncology, biology, physics, 98(2), 484. https://doi.org/10.1016/j.ijrobp.2017.02.033
Likhacheva, Anna, et al. "In Reply to Aronowitz." International journal of radiation oncology, biology, physics vol. 98,2 (2017): 484. doi: https://doi.org/10.1016/j.ijrobp.2017.02.033
Likhacheva A, Mitin T, Khmelevsky E. In Reply to Aronowitz. Int J Radiat Oncol Biol Phys. 2017 Jun 01;98(2):484. doi: 10.1016/j.ijrobp.2017.02.033. PMID: 28463174.
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Intensity modulated radiation therapy class solutions in Philips Pinnacle treatment planning for central nervous system malignancies: Standardized, efficient, and effective.

Practical radiation oncology

Likhacheva A, Palmer M, Du W, Brown PD, Mahajan A.
PMID: 24674178
Pract Radiat Oncol. 2012 Oct-Dec;2(4):e145-e153. doi: 10.1016/j.prro.2012.03.010. Epub 2012 Apr 25.

BACKGROUND: The use of intensity modulated radiation therapy (IMRT) is becoming more commonplace in the treatment of central nervous system (CNS) malignancies. However, the determination of beam arrangements is still an empirical process, and optimization of any given plan...

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Likhacheva A, Palmer M, Du W, et al. Intensity modulated radiation therapy class solutions in Philips Pinnacle treatment planning for central nervous system malignancies: Standardized, efficient, and effective. Pract Radiat Oncol. 2012;2(4):e145-e153doi: 10.1016/j.prro.2012.03.010.
Likhacheva, A., Palmer, M., Du, W., Brown, P. D., & Mahajan, A. (2012). Intensity modulated radiation therapy class solutions in Philips Pinnacle treatment planning for central nervous system malignancies: Standardized, efficient, and effective. Practical radiation oncology, 2(4), e145-e153. https://doi.org/10.1016/j.prro.2012.03.010
Likhacheva, Anna, et al. "Intensity modulated radiation therapy class solutions in Philips Pinnacle treatment planning for central nervous system malignancies: Standardized, efficient, and effective." Practical radiation oncology vol. 2,4 (2012): e145-e153. doi: https://doi.org/10.1016/j.prro.2012.03.010
Likhacheva A, Palmer M, Du W, Brown PD, Mahajan A. Intensity modulated radiation therapy class solutions in Philips Pinnacle treatment planning for central nervous system malignancies: Standardized, efficient, and effective. Pract Radiat Oncol. 2012 Oct-Dec;2(4):e145-e153. doi: 10.1016/j.prro.2012.03.010. Epub 2012 Apr 25. PMID: 24674178.
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Evaluation of different dispersion models for correlation of spectroscopic ellipsometry and X-ray reflectometry.

The Review of scientific instruments

Likhachev DV.
PMID: 30831715
Rev Sci Instrum. 2019 Feb;90(2):023909. doi: 10.1063/1.5050492.

The importance of proper modeling of the materials' optical properties for interpretation of spectroscopic ellipsometry (SE) data is pretty much impossible to underestimate. In this study, the thickness-dependent titanium nitride (TiN) optical properties were represented by the multiple-oscillator Drude-Lorentz,...

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Likhachev DV. Evaluation of different dispersion models for correlation of spectroscopic ellipsometry and X-ray reflectometry. Rev Sci Instrum. 2019;90(2):023909doi: 10.1063/1.5050492.
Likhachev, D. V. (2019). Evaluation of different dispersion models for correlation of spectroscopic ellipsometry and X-ray reflectometry. The Review of scientific instruments, 90(2), 023909. https://doi.org/10.1063/1.5050492
Likhachev, D V. "Evaluation of different dispersion models for correlation of spectroscopic ellipsometry and X-ray reflectometry." The Review of scientific instruments vol. 90,2 (2019): 023909. doi: https://doi.org/10.1063/1.5050492
Likhachev DV. Evaluation of different dispersion models for correlation of spectroscopic ellipsometry and X-ray reflectometry. Rev Sci Instrum. 2019 Feb;90(2):023909. doi: 10.1063/1.5050492. PMID: 30831715.
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SARS Revisited.

The virtual mentor : VM

Likhacheva A.
PMID: 23241619
Virtual Mentor. 2006 Apr 01;8(4):219-22. doi: 10.1001/virtualmentor.2006.8.4.jdsc1-0604.

No abstract available.

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Likhacheva A. SARS Revisited. Virtual Mentor. 2006;8(4):219-22doi: 10.1001/virtualmentor.2006.8.4.jdsc1-0604.
Likhacheva, A. (2006). SARS Revisited. The virtual mentor : VM, 8(4), 219-22. https://doi.org/10.1001/virtualmentor.2006.8.4.jdsc1-0604
Likhacheva, Anya. "SARS Revisited." The virtual mentor : VM vol. 8,4 (2006): 219-22. doi: https://doi.org/10.1001/virtualmentor.2006.8.4.jdsc1-0604
Likhacheva A. SARS Revisited. Virtual Mentor. 2006 Apr 01;8(4):219-22. doi: 10.1001/virtualmentor.2006.8.4.jdsc1-0604. PMID: 23241619.
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A130: Is the CCR5-delta32 Mutation Protective Against Systemic-Onset Juvenile Idiopathic Arthritis?.

Arthritis & rheumatology (Hoboken, N.J.)

Chasnyk V, Fedorova E, Egorov A, Ammosova T, Nekhai S, Kostik M, Santimov A, Dubko M, Kalashnikova O, Masalova V, Likhacheva T, Snegireva L, Grom A.
PMID: 24677884
Arthritis Rheumatol. 2014 Mar;66:S171. doi: 10.1002/art.38551.

BACKGROUND/PURPOSE: The CCR5 protein is a chemokine receptor, and is known to be expressed on T cells, macrophages, dendritic and microglia cells. It is believed that different prevalence of HLA and CCR5- delta32-a 32 base pair deletion in the...

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Chasnyk V, Fedorova E, Egorov A, et al. A130: Is the CCR5-delta32 Mutation Protective Against Systemic-Onset Juvenile Idiopathic Arthritis?. Arthritis Rheumatol. 2014;66:S171doi: 10.1002/art.38551.
Chasnyk, V., Fedorova, E., Egorov, A., Ammosova, T., Nekhai, S., Kostik, M., Santimov, A., Dubko, M., Kalashnikova, O., Masalova, V., Likhacheva, T., Snegireva, L., & Grom, A. (2014). A130: Is the CCR5-delta32 Mutation Protective Against Systemic-Onset Juvenile Idiopathic Arthritis?. Arthritis & rheumatology (Hoboken, N.J.), 66S171. https://doi.org/10.1002/art.38551
Chasnyk, Vyacheslav, et al. "A130: Is the CCR5-delta32 Mutation Protective Against Systemic-Onset Juvenile Idiopathic Arthritis?." Arthritis & rheumatology (Hoboken, N.J.) vol. 66 (2014): S171. doi: https://doi.org/10.1002/art.38551
Chasnyk V, Fedorova E, Egorov A, Ammosova T, Nekhai S, Kostik M, Santimov A, Dubko M, Kalashnikova O, Masalova V, Likhacheva T, Snegireva L, Grom A. A130: Is the CCR5-delta32 Mutation Protective Against Systemic-Onset Juvenile Idiopathic Arthritis?. Arthritis Rheumatol. 2014 Mar;66:S171. doi: 10.1002/art.38551. PMID: 24677884; PMCID: PMC4120138.
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High-Pressure-High Temperature (HP-HT) Stability of Polytetrafluoroethylene: Raman Spectroscopic Study Up to 10 GPa and 600 ℃.

Applied spectroscopy

Likhacheva AY, Chanyshev AD, Goryainov SV, Rashchenko SV, Litasov KD.
PMID: 28195496
Appl Spectrosc. 2017 Aug;71(8):1842-1848. doi: 10.1177/0003702817691529. Epub 2017 Feb 14.

The increasing demand for use of polymers at extreme conditions makes important the exploration of their behavior in a wide pressure and temperature range, which remains unknown for polytetrafluoroethylene (PTFE), one of the most common materials. An in situ...

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Likhacheva AY, Chanyshev AD, Goryainov SV, et al. High-Pressure-High Temperature (HP-HT) Stability of Polytetrafluoroethylene: Raman Spectroscopic Study Up to 10 GPa and 600 ℃. Appl Spectrosc. 2017;71(8):1842-1848doi: 10.1177/0003702817691529.
Likhacheva, A. Y., Chanyshev, A. D., Goryainov, S. V., Rashchenko, S. V., & Litasov, K. D. (2017). High-Pressure-High Temperature (HP-HT) Stability of Polytetrafluoroethylene: Raman Spectroscopic Study Up to 10 GPa and 600 ℃. Applied spectroscopy, 71(8), 1842-1848. https://doi.org/10.1177/0003702817691529
Likhacheva, Anna Yu, et al. "High-Pressure-High Temperature (HP-HT) Stability of Polytetrafluoroethylene: Raman Spectroscopic Study Up to 10 GPa and 600 ℃." Applied spectroscopy vol. 71,8 (2017): 1842-1848. doi: https://doi.org/10.1177/0003702817691529
Likhacheva AY, Chanyshev AD, Goryainov SV, Rashchenko SV, Litasov KD. High-Pressure-High Temperature (HP-HT) Stability of Polytetrafluoroethylene: Raman Spectroscopic Study Up to 10 GPa and 600 ℃. Appl Spectrosc. 2017 Aug;71(8):1842-1848. doi: 10.1177/0003702817691529. Epub 2017 Feb 14. PMID: 28195496.
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In Situ Raman Study of Liquid Water at High Pressure.

Applied spectroscopy

Romanenko AV, Rashchenko SV, Goryainov SV, Likhacheva AY, Korsakov AV.
PMID: 29258321
Appl Spectrosc. 2018 Jun;72(6):847-852. doi: 10.1177/0003702817752487. Epub 2018 Jan 23.

A pressure shift of Raman band of liquid water (H

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Romanenko AV, Rashchenko SV, Goryainov SV, et al. In Situ Raman Study of Liquid Water at High Pressure. Appl Spectrosc. 2018;72(6):847-852doi: 10.1177/0003702817752487.
Romanenko, A. V., Rashchenko, S. V., Goryainov, S. V., Likhacheva, A. Y., & Korsakov, A. V. (2018). In Situ Raman Study of Liquid Water at High Pressure. Applied spectroscopy, 72(6), 847-852. https://doi.org/10.1177/0003702817752487
Romanenko, Alexandr V, et al. "In Situ Raman Study of Liquid Water at High Pressure." Applied spectroscopy vol. 72,6 (2018): 847-852. doi: https://doi.org/10.1177/0003702817752487
Romanenko AV, Rashchenko SV, Goryainov SV, Likhacheva AY, Korsakov AV. In Situ Raman Study of Liquid Water at High Pressure. Appl Spectrosc. 2018 Jun;72(6):847-852. doi: 10.1177/0003702817752487. Epub 2018 Jan 23. PMID: 29258321.
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Showing 1 to 12 of 25 entries