ד"ר אלכסנדר צ'ורקין

Dr. Alexander Churkin

מוסד עיקרי

המכללה האקדמית להנדסה על שם סמי שמעון

Shamoon College of Engineering

טלפון

08-6475281

דוא״ל

alexach3@sce.ac.il

דיסציפלינות ראשיותMain Disciplines

Bioinformatics, Computational and Systems Biology, Computer Sciences

דיסציפלינות משניותSecondary Disciplines

Scientific Computing

תחומי מחקר / מילות מפתחKeywords

Monte Carlo Methods, Optimization, RNA Bioinformatics, Viral Dynamics

פרסומים ויצירות עיקריים / עדכנייםMain / Recent Publications

Vladimir Reinharz, Alexander Churkin, Harel Dahari, Danny Barash; Advances in parameter estimation for mathematical models of hepatitis C viral kinetics. AIP Conf. Proc. 1 September 2023; 2849 (1): 270001.
Churkin, A., Gabdank, I., Burin, A.L. et al. The strain gap in a system of weakly and strongly interacting two-level systems. Eur. Phys. J. Spec. Top. (2023).
Reinharz, V.; Churkin, A.; Dahari, H.; Barash, D. Advances in Parameter Estimation and Learning from Data for Mathematical Models of Hepatitis C Viral Kinetics. Mathematics 2022, 10, 2136.
Mhlanga, A.; Zakh, R.; Churkin, A.; Reinharz, V.; Glenn, J.S.; Etzion, O.; Cotler, S.J.; Yurdaydin, C.; Barash, D.; Dahari, H. Modeling the Interplay between HDV and HBV in Chronic HDV/HBV Patients. Mathematics 2022, 10, 3917.
Churkin, A.; Barash, D. Mathematical and Computational Biology of Viruses at the Molecular or Cellular Levels. Mathematics 2022, 10, 4446.
Churkin, A., Ponty, Y. & Barash, D. IndelsRNAmute: predicting deleterious multiple point substitutions and indels mutations. BMC Bioinformatics 23 (Suppl 8), 424 (2022).
Ashish Goyal, Alex Churkin, Danny Barash, Scott J Cotler, Amir Shlomai, Ohad Etzion, Harel Dahari, Modeling-Based Response-Guided DAA Therapy for Chronic Hepatitis C to Identify Individuals for Shortening Treatment Duration, Open Forum Infectious Diseases, Volume 9, Issue 5, May 2022, ofac157,
Alexander Churkin, Stephanie Kriss, Asher Uziel, Ashish Goyal, Rami Zakh, Scott J. Cotler, Ohad Etzion, Amir Shlomai, Horacio G. Rotstein, Harel Dahari, Danny Barash,
Machine learning for mathematical models of HCV kinetics during antiviral therapy,
Mathematical Biosciences, Volume 343, 2022, 108756
Zakh, R.; Churkin, A.; Totzeck, F.; Parr, M.; Tuller, T.; Etzion, O.; Dahari, H.; Roggendorf, M.; Frishman, D.; Barash, D. A Mathematical Analysis of HDV Genotypes: From Molecules to Cells. Mathematics 2021, 9, 2063.
Rami Zakh & Alexander Churkin & William Bietsch & Menachem Lachiany & Scott J. Cotler & Alexander Ploss & Harel Dahari & Danny Barash, 2021. "A Mathematical Model for Early HBV and -HDV Kinetics during Anti-HDV Treatment," Mathematics, MDPI, vol. 9(24), pages 1-9, December.
Churkin, A.; Totzeck, F.; Zakh, R.; Parr, M.; Tuller, T.; Frishman, D.; Barash, D. A Mathematical Analysis of RNA Structural Motifs in Viruses. Mathematics 2021, 9, 585.
Churkin A, Kriss S, Uziel A, Goyal A, Zakh R, Cotler SJ, Etzion O, Shlomai A, Rotstein HG, Dahari H, Barash D. Machine learning for mathematical models of HCV kinetics during antiviral therapy. Math Biosci. 2021 Dec 6:108756.
Alexander Churkin, Shlomi Matityahu, Andrii O. Maksymov, Alexander L. Burin, and Moshe Schechter (2021) Anomalous low-energy properties in amorphous solids and the interplay of electric and elastic interactions of tunneling two-level systems, Phys. Rev. B 103,
Alexander Churkin, Yann Ponty, Danny Barash. IndelsRNAmute: Predicting deleterious multiple point substitutions and indels mutations. ISBRA 2020 - 16th International Symposium on Bioinformatics Research and Applications, Dec 2020, Moscow, Russia
Swikriti Dasgupta, Michio Imamura, Evan Gorstein, Takashi Nakahara, Masataka Tsuge, Alexander Churkin, David Yardeni, Ohad Etzion, Susan L Uprichard, Danny Barash, Scott J Cotler, Harel Dahari, Kazuaki Chayama, Modeling-Based Response-Guided Glecaprevir-Pibrentasvir Therapy for Chronic Hepatitis C to Identify Patients for Ultrashort Treatment Duration, The Journal of Infectious Diseases, Volume 222, Issue 7, 1 October 2020, Pages 1165–1169,
Rabaev, B. Kurar Barakat, A. Churkin and J. El-Sana, "The HHD Dataset," 2020 17th International Conference on Frontiers in Handwriting Recognition (ICFHR), 2020, pp. 228-233
Matan Drory Retwitzer, Vladimir Reinharz, Alexander Churkin, Yann Ponty, Jérôme Waldispühl, Danny Barash, incaRNAfbinv 2.0: a webserver and software with motif control for fragment-based design of RNAs, Bioinformatics, Volume 36, Issue 9, 1 May 2020, Pages 2920–2922
Evan Gorstein, Marianne Martinello, Alexander Churkin, Swikriti Dasgupta, Kevin Walsh, Tanya L. Applegate, David Yardeni, Ohad Etzion, Susan L. Uprichard, Danny Barash, Scott J. Cotler, Gail V. Matthews, Harel Dahari, Modeling based response guided therapy in subjects with recent hepatitis C infection, Antiviral Research, Volume 180, 2020,
Churkin, A.; Lewkiewicz, S.; Reinharz, V.; Dahari, H.; Barash, D. Efficient Methods for Parameter Estimation of Ordinary and Partial Differential Equation Models of Viral Hepatitis Kinetics. Mathematics 2020, 8, 1483.
Reinharz, V., Churkin, A., Lewkiewicz, S. et al. A Parameter Estimation Method for Multiscale Models of Hepatitis C Virus Dynamics. Bull Math Biol 81, 3675–3721 (2019).