10th anniversary International Multiconference «Bioinformatics of Genome Regulation and Structure\ Systems Biology»

1 September, Thursday
	Small hall		Library		Exhibition Hall
	BGRS\SB		BGRS\SB		MM-HPC-BBB
9.00–13.10	Section “Bioinformatics and Systems Biology of Plants” Chairpersons: Elena Salina, Institute of Cytology and Genetics of SB RAS; Ivan Paponov, Norwegian Research Institute for Agriculture and the Environment, Norway	9:00–11.00	Section “Evolutionary Bioinformatics” Chairpersons: Fyodor Kondrashov, Evolutionary Genomics laboratory and ICREA, Barcelona, Spain	9:00–13:00	Morning session “Analysis of dynamical systems. Identifiability” Chairpersons: Prof. Sergey Kabanikhin, Prof. H.T. Banks, Dmitriy Voronov
9.00–9.20	Dynamic metabolic regulation by a chromosome segment from a wild species during fruit development in a tomato introgression line Yoshinori Kanayama School of Agricultural Science, Tohoku University, Sendai, Japan	9.00–9.25	Evolution of restriction-modification systems in large scale Olga Bezsudnova^1, I.S. Rusinov,^1,2 A.S. Ershova,^2,3,4 A.S. Karyagina,^2,3,4 S.A. Spirin,^1,2,5 A.V. Alexeevski^1,2,5 ^1Faculty of Bioengineering and Bioinformatics, Moscow State University, Russia; ^2Belozersky Institute of Physico-Chemical Biology, Moscow State University, Russia; ^3Gamaleya Center of Epidemiology and Microbiology, Moscow, Russia; ^4Institute of Agricultural Biotechnology RAS, Moscow, Russia; ^5Scientific Research Institute for System Studies, RAS, Moscow, Russia	9:00–9:30	Regularization methods in determination of biological molecule force fields Gulnara Kuramshina, A.Ya. Korneichuk, S.A. Sharapova Faculty of Chemistry, Department of Physical Chemistry, Moscow State University, Moscow, 119991, Russia
9.20–9.40	New insights into the regulation of reactive oxygen species by auxin through gene expression analysis Ivan Paponov^1,2*, V. Budnyk^1, T. Khodus^1, M. Paponov^1, K. Palme^1 ^1Institute of Biology II/Molecular Plant Physiology, Faculty of Biology, Albert-Ludwigs-University of Freiburg, Germany ^2NIBIO, Norwegian Institute of Bioeconomy Research, Postvegen, Norway	9.25–9.50	Intron evolution: sliding and variability of length Irina Poverennaya^1, D.D. Gorev^2, T.V. Astakhova^3, M.A. Roytberg^2,3. ^1Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia; ^2 Moscow Institute of Physics and Technology, Moscow, Russia; ^3 Institute of Mathematical Problems of Biology RAS, Pushchino, Russia	9:30–10:00	First passage random walk meshfree methods for biological reaction-diffusion fluctuation induced systems Karl Sabelfeld Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
9.40–10.00	Genetics and physiology of wheat inflorescence development Oxana Dobrovolskaya^1,5, P. Martinek^2, Yu.L. Orlov^1, A.A. Krasnikov^3, E.D. Badaeva^4, K.I. Popova^5, Salse J.^6, Watanabe.N.^7 ^1ICG SB RAS, Novosibirsk, Russia; ^2Agrotest Fyto, Ltd, Kroměříž, Czech Republic; ^3Central Siberian Botanical Garden SB RAS, Novosibirsk, Russia ^4Vavilov Institute of General Genetics RAS, Moscow, Russia; ^5Novosibirsk State Agrarian University, Novosibirsk, Russia; ^6INRA-UBP UMR-1095, Clermont –Ferrand, France; ^7College of Agriculture, Ibaraki University, Ibaraki, Japan	9.50–10.15	Phylogenetic analysis of DAHPS II type amino acid sequences Anastasia Semashko, E.G. Veremeenko, N.P. Maksimova Belarusian State University, Minsk, Belarus	10:00–10:30	Van der pol – duffing’s equation as a relaxation oscillation model of hemodynamic parameters in different cerebral vessels A.A. Cherevko^1,2, Irina Ufimtseva^1, A.P. Chupakhin^1,2, A.L. Krivoshapkin^3, K.Yu. Orlov^3 ^1NSU, Novosibirsk, Russia; ^2Lavrentyev Institute of Hydrodynamics SB RAS, Novosibirsk, Russia; ^3Academician E.N. Meshalkin Research Institute of Circulation Pathology, Novosibirsk, Russia
10.00–10.20	Nicotiana genomics: from plants to genomes N. Sierro, J.N.D. Battey, S. Ouadi, N. Bakaher, L. Bovet, A. Willig, S. Goepfert, M.C. Peitsch, Nikolai Ivanov Philip Morris International R&D, Philip Morris Products S.A., Switzerland	10.15–10.40	The evolution of language-readiness in the hominin lineage: an analysis of open chromatin regions implicated in gene regulation Konstantin Gunbin^1, A. Benítez-Burraco^2, F. Gusev^1, E. Rogaev^1,3 ^1ICG SB RAS, Novosibirsk, Russia; ^2Department of Philology, University of Huelva, Huelva, Spain; ^3University of Massachusetts Medical School, Worcester, USA	10:30–10:50	An algorithm for selecting of antibiotic resistance gene-predictors for Klebsiella pneumoniae hospital strains Ivan Balashov^1, V.A. Naumov^1, O.S. Altukhova^1, P.I. Borovikov^1, I.S. Mukosey^1, T.O. Kochetkova^1, A.B. Gordeev^1, D.V. Dubodelov^1, E.S. Shubina^1, L.A. Lyubasovskaya^1, T.V. Priputnevich^1 ^1Academician V.I. Kulakov Research Center of Obstetrics, Gynecology and Perinatology, Ministry of Health, Moscow, Russia
10.20–10.35	A spatial model of plant interactome and long non-coding RNA Hongjun Chen, Jitong Xue, Ming Chen Zhejiang University, Hangzhou, China
10.35–10.50	Computer simulation of trichome patterning on growing wheat leaf taking into account the biomechanics of cells Ulyana Zubairova^1, S.V. Nikolaev^1, A.V. Penenko^2, N.L. Podkolodnyy^1, S.K. Golushko^3, D.A. Afonnikov^1, and N.A. Kolchanov^1 ^1ICG SB RAS, Novosibirsk; ^2ICMMG SB RAS, Russia; ^3Design and Technology Institute of Digital Techniques SB RAS, Novosibirsk, Russia
10.50–11.10 Coffee break
11.10–11.30	Nucleotide diversity analysis highlights functionally important genomic regions Tatiana Tatarinova^1,2, E. Chekalin^3, Y. Nikolsky^3,4,5, S. Bruskin^3, D. Chebotarov^6, K.L. McNally^6, N. Alexandrov^6 ^1Center for Personalized Medicine and Spatial Sciences Institute, University of Southern California, Los Angeles, CA, USA; ^2Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russian Federation; ^3Vavilov Institute of General Genetics, Moscow, Russia; ^4F1 Genomics, San Diego, CA, USA; ^5School of Systems Biology, George Mason University, VA, USA; ^6International Rice Research Institute, Los Baños, Philippines			11:10–11:40	Image processing in biology and medicine Ivan Kazantsev ^1Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia
11.30–11.50	Sleep of reason in the analysis of the results of research on materials «Proteomic information ofspring wheat varieties differing in resistance to infection after Puccinia recondita inoculation» Kanat Sarsenbayev, A. Sarsenbayeva L.N. Gumilyov Eurasian National University, Astana, Kazakhstan			11:40–12:10	Inverse modeling of diffusion processes in biological tissues Aleksey Penenko^1-3, S.V. Nikolaev^2,S.I. Baiborodin^2, A.V. Romaschenko^2 ^1Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia; ^2ICG SB RAS, Novosibirsk, Russia; ^3NSU, Novosibirsk, Russia
11.50–12.10	Study of Armillaria borealis pathogenicity by the comparative whole genome sequencing Yuliya Putintseva^1,2, I.N. Pavlov^1,2, N.V. Oreshkova^1,2, V.V. Sharov^1, D.A. Kuzmin^1, S.V. Makolov^1, K.V. Krutovsky^1,3,4,5 ^1Siberian Federal University, Krasnoyarsk, Russia; ^2V.N. Sukachev Institute of Forest SB RAS, Krasnoyarsk, Russia; ^3Georg-August University of Göttingen, Göttingen, Germany; ^4N.I. Vavilov Institute of General Genetics, RAS, Moscow, Russia; ^5Texas A&M University, College Station, USA			12:10–12:25	Population-based mathematical modeling of human immunoglobulin G N-glycosylation Elena Kutumova^1,2, I. Yevshin^1,2, E. Basmanova^1,2,3, N. Mandrik^1,2,4, R. Sharipov^1,2,3, F. Kolpakov^1,2 ^1Institute of Systems Biology Ltd., Novosibirsk, Russia; ^2Design Technological Institute of Digital Techniques, Novosibirsk, Russia ^3NSU, Novosibirsk, Russia; ^4Sobolev Institute of Mathematics SB RAS, Novosibirsk, Russia
12.10–12.30	Transcriptomic analysis of wheat root in response to essential nutrient deficiency: a gemome-wide comparative study Saurabh Gupta^1, B.S. Yadav^2, S. Freilich^3, V.P. Kumar^1 ^1Department of Bioinformatics, Indian Institute of Information Technology-Allahabad, India; ^2Deparment of Molecular Biology and Ecology of Plants, Tel Aviv University, Israel; ^3 Systems Biology and Ecology ARO- Volcani Center- Bet-Dagan, Israel			12:25–12:40	Identifiability of mathematical models of physiology Anastasia Grodz^1, S.I. Kabanikhin^1,2, D.A. Voronov^1,2, O.I. Krivorotko^1,2 ^1NSU, Novosibirsk, Russia; ^2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
12.30–12.50	Monotropa hypopitys whole genome and transcriptome sequencing data Elena Kochieva, E.V. Gruzdev, A.V. Beletsky, A.M. Mazur, A.V. Shchennikova, O.V. Shulga, M.A. Filyushin, V.V. Kadnikov, A.V. Mardanov, N.V. Ravin, K.G. Skryabin Institute of Bioengineering, Research Center of Biotechnology RAS, Moscow, Russia			12:40–12:55	A variation approach for solving of a parameter identification problem for the mathematical model of HIV dynamics Darya Ermolenko^1, S.I. Kabanikhin^1,2, O.I. Krivorotko^1,2 ^1NSU, Novosibirsk, Russia ^2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
12.50–13.10	3D map of proliferation activity in Arabidopsis thaliana root tips: transition domain boundaries and its bilateral symmetry Viktoriya Lavrekha^1,2,, T. Pasternak ^3, N.A. Omelyanchuk^1,2, V.B. Ivanov^4, V.V. Mironova^1,2 ^1ICG SB RAS, Novosibirsk, Russia; ^2LCTEB, NSU, Novosibirsk, Russia ^3Institute of Biology II/Molecular Plant Physiology, Centre for BioSystems Analysis, BIOSS Centre for Biological Signalling Studies University of Freiburg, Germany; ^4Timiryazev Institute of Plant Physiology, Russian Academy of Sciences Moscow, Russia
			Lunch: 13:00–14:00
	Small hall		Library		Exhibition Hall
	BGRS\SB		BGRS\SB		MM-HPC-BBB
14.00–18.35	Section “Proteomics” (House of Scientists SB RAS, Small hall) Chairpersons: Andrey Lisitsa, IBMC, Moscow, Russia; Sergey Peltek, ICG SB RAS, Novosibirsk, Russia		2^nd IC&G SB RAS – Tohoku University Open Joint Seminar on Education and Research in High-Tech for Plant Production Opening Alexey Kochetov, Yoshinori Kanayama	14:00–14:15	IPE Pack for modeling PK processes Dmitry Voronov^1,2, A.Yu. Belonog^2, S.I. Kabanikhin^1,2 ^1Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia
14.00–14.35	Nonthermal impact terahertz radiation on the living systems I.A. Mescheryakova^1, E.V. Demidova^1, T.N. Goryachkovskaya^1, E.A. Demidov^1, A.V. Bryanskaya^1, S.V. Sergeeva^1, S.L. Kiselev3, M.A. Lagarkova^3, G.N. Kulipanov^2, A.I. Semenov^2, N.A. Vinokurov^2, N.A. Kolchanov^1, V.M. Popik^2, Sergey Peltek^1 ^1ICG SB RAS; ^2Budker Institute of Nuclear Physics the SB RAS; ^3Vavilov Institute of General Genetics, RAS, Moscow		Technological progress in Japanese horticultural production and Its academic aspects Yoshinori Kanayama	14:15–14:30	Algorithms comparison of inverse problem solution for pharmacokinetic models Anatoly Belonog^1, D.A.Voronov^1,2 ^1NSU, Novosibirsk, Russia; ^2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
14.35–15.00	Impact of 105-day isolation conditions on proteins expressed in endothelial cells, in the framework of the «Mars-500» project L.H. Pastushkova^1, D.N. Kashirina^1, A.S. Kononikhin^1,3, Alexander Brzhozovsky^1 A.G., ^1Dobrokhotov I.V., ^2Tiys E.S., ^2Ivanisenko V.A., ^3Nikolaev E.N., ^1Larina I.M. ^1State scientific center of Russian Federation – Institute for biomedical problems RAS, Moscow; ^2ICG SB RAS, Russia ^3Emanuel Institute of Biochemical Physics RAS, Moscow, Russia		Transgenic plants as genetic models Alexey Kochetov	14:30–14:45	A numerical algorithm of parameter identification in mathematical model of tuberculosis transmission with control programs Victoriya Kashtanova^1, S.I. Kabanikhin^1,2, O.I. Krivorotko^1,2, D.A. Voronov^1,2 ^1NSU, Novosibirsk, Russia;^2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
				14:45–15:00	Stochastic and gradient approaches for solving of the inverse problem for basic mathematical model of infectious disease with delay Varvara Latyshenko^1, O.I. Krivorotko^1,2, S.I. Kabanikhin^1,2 ^1NSU, Novosibirsk, Russia^; 2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
15.00–15.25	Kynurenic acid-sensitized photolysis of lens proteins under anaerobic conditions Ekaterina Sormacheva^1, P.S. Sherin^1,2, E.A. Zelentsova^1,2, T.G. Duzhak^1,2, Yu.P. Tsentalovich^1,2, R.Z. Sagdeev^1,2 ^1International Tomography Center SB RAS, Novosibirsk, Russia ^2NSU, Novosibirsk, Russia		Roles of pathogenesis related-10 proteins in biotic and abiotic stresses in comparison with heterologous ribonucleases Ekaterina Trifonova	15:00–15:15	Mathematical modeling and parameters estimation for PK experimental data Elizaveta Vostrikova^1, A.Yu. Belonog^1, D.A.Voronov^1,2 ^1NSU, Novosibirsk, Russia; ^2Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia
				15:15–18:00	Afternoon session “Hemodynamic and tomography” Chairperson: Prof. Alexander Chupakhin, Maxim Shishlenin
15.25–15.50	Looking for proteomic markers of breast cancer in blood exosomes Oleg Tutanov^1, S.N. Tamkovich^1, Y.S. Bakakina^2, L.V. Dubovskaya^2, Y.P. Tsentalovich^3, I.D. Volotovskiy^2, P.P. Laktionov^1 ^1ICBFM SB RAS, Novosibirsk, Russia ^2Institute of biophysics and cellular engineers NASB, Minsk, Byelorussia ^3Institute “International Tomografic Center” SB RAS, Novosibirsk, Russia		Towards the reference sequence of chromosome 5B of common wheat Elena Salina	15:15–15:30	Modeling and optimization the process of embolization arteriovenous malformation on the bazis of two-phase filtration model Tatiana Gologush^2, A.A. Cherevko^1,2, , V.V. Ostapenko^1,2, I.A. Petrenko^3, A.P  Chupakhin^1,2 ^1Lavrentyev Institute of Hydrodynamics SB RAS, Novosibirsk, Russia ^2NSU, Novosibirsk, Russia; ^3Vladimir State University, Vladimir, Russia
			Inflorescence architecture in wheat Oxana Dobrovolskaya	15:30–15:45	Nyquist diagrams for the generalized van der pol– duffing equation describing local cerebral hemodynamic Elizaveta Bord^2, A.A. Cherevko^1,2, A.K. Khe^1,2, V.A. Panarin^3, K.Yu. Orlov^3, A.P. Chupakhin^1,2 ^1Larentyev Institute of Hydrodynamics SB RAS, Novosibirsk, Russia ^2NSU, Novosibirsk, Russia; ^3Academician E.N. Meshalkin Research Institute of Circulation Pathology, Novosibirsk, Russia
15.50–16.10 Coffee break
16.10–16.35	Microbial community of the oil site of the Uzon Caldera (Kamchatka) S.E. Peltek^1, Alla Bryanskaya^1, Y.E. Uvarova^1, A.S. Rozanov^1, T.V. Ivanisenko^1, T.K. Malup^1, V.A. Ivanisenko^1, E.V. Lazareva^2, O.V. Saik^1, S.M. Zhmodik^2, O.P. Taran^3, N.M. Slynko^1, S.V. Shekhovtsov^1, V.N. Parmon^3, N.L. Dobretsov^2, N.A. Kolchanov^1 ^1ICG SB RAS, Novosibirsk, Russia; ^2V S Sobolev Institute of Geology and Mineralogy SB RAS, Novosibirsk, Russia; ^3Boreskov Institute of Catalysis SB RAS, Novosibirsk, Russia		Synthesis and accumulation of a novel functional food component in tomato Ayaka Ito	16:10–16:25	Experimental research of the viscous fluid flow in the elastic modelwith the application in hemodynamics Nikita Denisenko^1,6, A.P. Chupakhin^1,6, A.K. Khe^1,6, A.A. Cherevko^1,6, A.A. Yanchenko^1,6, A.A. Tulupov^2,6, A.V. Boiko^3, A.L. Krivoshapkin^4, K.Yu. Orlov^4, M.P. Moshkin^5, A.E. Akulov^5 ^1Lavrentyev Institute of Hydrodynamics SB RAS; ^2International Tomography Center SB RAS; ^3Khristianovich Institute of Theoretical and Applied Mechanics SB RAS; ^4Meshalkin Research Institute of Circulation Pathology; ^5ICG SB RAS; ^6NSU, Novosibirsk, Russia
16.35–17.00	Proteomic screening for amyloid-forming proteins in bacteria Escherichia coli Anton Nizhnikov^1,2,3*, K.S. Antonets^1,2, K.V. Volkov ^1, A.L. Maltseva ^1, A.P. Galkin^1,2 ^1St. Petersburg State University; ^2Vavilov Institute of General Genetics (St. Petersburg Branch); ^3All-Russian Research Institute for Agricultural Microbiology, St. Petersburg, Russia		Physiological and transcriptional changes in a blossom-end rot resistant tomato introgression line IL8-3 fruit Tomoki Shibuya	16:25–16:40	Mathematical modelling of artificial heart valve performance D.A. Dolgov, Y.N. Zakharov Kemerovo State University, Kemerovo, Russia
17.00–17.15	Actual approaches for qualification and quantification of proteome changes Eugeny Vrzheschch Bio-Rad, Moscow, Russia		Study on the regulation of cell division during early fruit development in tomato Hideki Nariyama	16:40–16:55	Mathematical model of cerebral haemodynamics in presence of aneurysm Daniil Parshin, I.V. Ufimtseva^2, A.A. Cherevko^1,2, A.K. Khe^1,2, K.Yu. Orlov^3, A.L. Krivoshapkin^3, A.P. Chupakhin^1,2 ^1Lavrentyev Institute of hydrodynamics SB RAS; ^2NSU; ^3Meshalkin Research Institute of Circulation Pathology, Novosibirsk, Russia
17.15–17.40	Prediction of structural properties of uncharacterized proteins from their post-cleavage mass spectra by a multivariate statistical model Oleg Markelov^1, A.R. Kayumov^2, M.I. Bogachev^1 ^1St. Petersburg Electrotechnical University, St. Petersburg, Russia ^2Kazan (Volga region) Federal University, Kazan, Russia		VIGS-mediated resistance to crown gall disease Pavel Nikulin	16:55–17:10	Investigation of the influence of genotype on the structure of the circulatory system laboratory mice Galina Yankova^3, A.E. Akulov^1, S.V. Maltseva^2,3, M.P. Moshkin^1,3, A.K. Khe^3,4, A.A. Cherevko^3,4, A.P. Chupakhin^3,4, ^1ICG SB RAS; ^2Sobolev Institute of mathematics SB RAS, Russia; ^3NSU; ^4Lavrentyev Institute of Hydrodynamics SB RAS, Novosibirsk, Russia
17.40–18.05	Coupled molecular dynamic and continuum electrostatic method to compute ionization of proteins as a function of pH Yury Vorobjev ICBFM SB RAS, Novosibirsk, Russia		Membrane-associated kinase regulators of MAKR family genes in Arabidopsis thaliana L. Daria Novikova	17:10–17:25	Personalized simulation based on the modified analytical model of the left ventricle of the human heart Anton Koshelev^1,2, A.E. Bazhutina^1, K.S. Ushenin^1,3 ^1Ural Federal University; ^2Institute of Mathematics and Mechanics UB RAS; ^3Institute of Immunology and Physiology UB RAS, Ekaterinburg, Russia
			Plant delta-OAT gene expression in ontogenesis and stress response. Anastasiya Egorova	17:25–17:40	Validation of the human arterial tree model Ilya Kiselev^1,2, E.A. Biberdorf^3,4, V.I. Baranov^5, T.G. Komlyagina^5, I.Y.Suvorova^5, V.N.Melnikov^5, S.G.Krivoshchekov^5, F.A.Kolpakov^1,2 ^1Institute of Systems Biology Ltd, Novosibirsk; ^2Design Technological Institute of Digital Techniques SB RAS; ^3NSU, Novosibirsk, Russia; ^4Sobolev Institute of Mathematics SB RAS; ^5State Scientific-Research Institute of Physiology & Basic Medicine, Novosibirsk, Russia
			Functional and structural characterisation of PPD-B1 photoperiod insensitive allele Antonina Kiseleva	17:40–17:55	Inverse problems for nonlinear PDE: applications to biology and medicine Maxim Shishlenin Sobolev Institute of Mathematics SB RAS; ICM&MG SB RAS; NSU, Novosibirsk, Russia
			Phage-producing plants as models for expression of heterologous replicons Anna Nazarenko	17:55–18:10	Inverse and ill-posed problems in tomography, based on the propagation of the acoustic waves Nikita Novikov^1,3, I.M. Kulikov^1,3, M.A. Shishlenin^1,2,3 ^1Institute of Computational Mathematics and Mathematical Geophysics SB RAS, Novosibirsk, Russia; ^2Sobolev Institute of Mathematics SBRAS, Novosibirsk, Russia; ^3NSU, Novosibirsk, Russia
				18:10–18:25	Localisation of centers of neuron-vessel interconnections for neurobiofeedback Pavel Rudych, V.S. Rudnev, L.I. Kozlova, A.A. Savelov NSU, Novosibirsk, Russia Institute of Molecular Biology and Biophysics, Novosibirsk, Russia International Tomography Center, Novosibirsk, Russia