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

Virtual biology — the foundation

Fyodor Kolpakov

Institute of Systems Biology Ltd., Novosibirsk, Russia

Design Technological Institute of Digital Techniques SB RAS Novosibirsk, Russia

14.40–15.10

Delineating single cell life/death decisions in the CD95/FAS network Jörn Buchbinder^1, D. Pischel^2, K. Sundmacher^2, R.J. Flassig^2, I.N. Lavrik^1 ^1Department of Translational Inflammation Research, Otto-von-Guericke University Magdeburg, Germany; ^2Max-Planck-Institute for Dynamics of Complex Technical Systems, Magdeburg, Germany

14:40 – 15:10

Regulation of TREM2 expression by an inducible, NF-kB-sensitive miRNA-34a;  relevance to amyloidogenesis and cognition Zhao Y^1, Bhattacharjee S^1, Jones BM^1, Dua P^2, Hill JM ^1,3, Andreeva T ^4,5, Grigorenko A ^4,5, Kuznetsova I ^4,5, Rogaev EI ^4-7, Walter J. Lukiw ^1,8  ^1Louisiana State University Health Sciences Center, LA, USA; ^2Louisiana State Technical University, LA, USA; ^3Louisiana State University Health Sciences Center, LA, USA ^4Vavilov Institute of General Genetics RAS, Moscow, Russia; ^5ICG SB RAS, Novosibirsk, Russia; ^6Brudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, Massachusetts, USA; ^7Lomonosov Moscow State University, Moscow, Russia; ^8Louisiana State University Health Sciences Center, New Orleans LA, USA

14:00−14:20

Viruses circulating in wild bird populations of Central and North-Eastern Eurasia: evaluation of the potential hazard to human Аlexander Shestopalov Scientific Institute of Clinical and Experimental Medicine, Novosibirsk, Russia

12.55-13.10

Identification of master-regulators for programming of spermatogonal stem cells pluripotency by the use of the geneXplain/BioUml platform Kel A.E.^1,2,*, Stelmashenko D.E.^2 1Institute of Chemical Biology and Fundamental Medicine, SB RAS, Novosibirsk, Russia 2BIOSOFT.RU, Ltd, Novosibirsk, Russia

14.30–14.45

Solutions for analysis of NGS-data from the company Illumina Dania Gazizova ООО “Альбиоген” / ALBIOGEN

14.45–15.00

Altered catecholaminergic, serotonergic, gabaergics, and glutamatergic genes expression in the ventral tegmental area of male mice under chronic social defeat stress: RNA-SEQ data Anna Galyamina, I.L. Kovalenko, D.A. Smagin, N.N. Kudryavtseva ICG SB RAS, Novosibirsk, Russia

15.10-15.25

Advanced capabilities of visualization and analysis of cultural models E.R. Muslikhov, L.A. Strukova Qvadros-Bio, LLC, Moscow, Russia

15:10 – 15:40

The role of B cells in pathogenetisis of Alzheimer’s disease Kim K^1, Bodogai M^1, Aliseychik M^2, Baljinnyam T^1,2, Rogaev E^2,3,4and Arya Biragyn^1^*. ^1LMBI, National Institute on Aging, Baltimore, MD, USA.;^2Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia, ^3Brudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, MA, USA; ^4Institute of Cytology and Genetics, SB RAS, Novosibirsk Russia.

14:20−14:40

New and emerging viral infections. Flaviviruses and Zika virus Valery Loktev Vector, Novosibirsk, Russia

14:30–14:45

SyGraph – web system for visualization of synteny alignments and comparison of assembly contigs Mikhail Genaev^1, D. A. Afonnikov^1,2 ^1Institute of Cytology and Genetics RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia

15.00–15.15

Differential expression in Helix lucorum statocysts under microgravity conditions Alexander Osypov^1,2, P. Kolosov^1, N. Aceyev^1, E. Chesnokova^1, M. Roshchin^1, N. Bal^1, P. Balaban^1 ^1Institute of Higher Nervous Activity and Neurophysiology of RAS, Moscow, Russia; ^2Institute of Cell Biophysics of RAS, Pushchino, Russia

15.25–15.45

Novel approach for computational design of small molecule inhibitors of protein/protein interactions in CD95/FAS pathway Nikita Ivanisenko^1,2, A.S. Ishchenko^1,2, I.N. Lavrik^1,^3 , V.A. Ivanisenko^1 ^1ICG SB RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia ^3Otto-von Guericke-University, Magdeburg, Germany

15:40 – 16:00

Analysis of γδT-cell repertoire in Alzheimer’sdisease patients and individuals with no memory impairment Maria Aliseychik^1, Zolotoreva O.^1, Gusev F.^1, Grigorenko A.^1,2, Byragin A.^3, Andreeva T.^1, Rogaev E.^1,2 ^1Vavilov Institute of General Genetics RAS, Moscow, Russia; ^2Department of Psychiatry, Brudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, Worcester, Massachusetts, ^3Immunoregulation section, LMBI, National Institute on Aging, Baltimore, MD, USA.

14:40−15:00

Molecular mechanisms of opisthorchiasis pathogenesis: the relationships of Opisthorchis felineus with host’s DNA Mariya Pakharukova^1, G.A. Maksimova^1, J.M. Correia da Costa^2, N. Vale^2, V.A. Mordvinov^1,3 ^1ICG SB RAS, Novosibirsk, Russia; ^2Center for the Study Animal Science, ICETA, University of Porto, Porto, Portugal ^3Institute of Molecular Biology and Biophysics, Novosibirsk, Russia

14:45–15:00

AIMedica - intelligent system for disease diagnostics based on text-mining analysis of scientific publications and different medical data sources Olga Saik^1,2, P.S. Demenkov^1,2, A.V. Starkov^3,4, T.V. Ivanisenko^1,2, E.V, Gaisler^3,4, V.A. Ivanisenko^1,2 ^1ICG SB RAS, Novosibirsk, Russia; ^2PB-soft LLC, Novosibirsk, Russia; ^3Managing company "Lomonosov Capital" LLC, Novosibirsk, Russia; ^4Intelmed Ltd, Novosibirsk, Russia

15.15–15.30

Generalising better: applying deep-learning to integrate deleteriousness prediction scores for whole-exome SNV studies Ilia Korvigo, A.A. Afanasyev Moscow Institute of Physics and Technology

15:00−15:20

Experimental model of opisthorchiasis as a tool for biomedical researches Damira Avgustinovich ICG SB RAS, Novosibirsk, Russia

15:00–15:15

Algorithms and tools developed by novel computing systems in biology LLC Evgeny Cheryomushkin, S. Nikitin, T. Valeev, T. Konovalova, A. Ryabova, K. Golosov, I. Mikerova, N. Gorokhov, D. Babiy ^1Novel Computing Systems in Biology LLC, Novosibirsk, Russia

15.30–15.45

Does thyroid divergence serve as a driver of speciation in cyprinid fishes of the genus Ballerus (teleostei)? Boris Levin^1*, A.A. Bolotovskiy^1, M.A. Levina^1, A.V. Nedoluzhko^2, K.G. Skryabin^2,3,4, S.M.Rastorguev^2, E.B. Prokhortchouk^3,4 ^1Institute of Biology of Inland Waters RAS, Borok, Russia; ^2National Research Center Kurchatov Institute, Moscow, Russia; ^3Institute of Bioengineering, Federal Research Center “Fundamentals of Biotechnology” RAS, Moscow, Russia; ^4Lomonosov Moscow State University, Faculty of Biology, Moscow, Russia

15.45–16.05

Associative networks of glaucoma and apoptosis Olga Saik^1, P.S. Demenkov^1, O.S. Konovalova^2, M.N. Ponomareva^2, N.A. Konovalova^2, N.A. Kolchanov^1, I.N. Lavrik^3, V.A. Ivanisenko^1. ^1ICG SB RAS, Novosibirsk, Russia ^2Tyumen State Medical Academy, Ministry of Health of the Russian Federation, Tyumen, Russia; ^3Otto von Guericke University Magdeburg, Magdeburg, Germany

15:20−15:40

Founder effect in Siberian indigenous populations through the prism of hereditary deafness Olga Posukh^1,2, M.S. Bady-Khoo^3, M.V. Zytsar^1,2^, V.Y. ^Mikhalskaia^1,2, N.A.Barashkov ^4,5, I.V. Morozov^2,6, A.A. Bondar^6 ^1ICG SB RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia; ^3Perinatal Center of the Tuva Republic, Kyzyl, Russia; ^4Yakut Scientific Centre of Complex Medical Problems, Yakutsk, Russia; ^5M.K. Ammosov North-Eastern Federal University, Yakutsk, Russia; ^6ICBFM SB RAS, Novosibirsk, Russia

15:15–15:30

Rule-based modeling in biouml Nikita Mandrik^1-3, E.O. Kutumova^1,2, F.A. Kolpakov^1,2 ^1Design Technological Institute of Digital Techniques SB RAS, Novosibirsk, Russia; ^2Institute of Systems Biology, Novosibirsk, Russia ^3Sobolev Institute of Mathematics SB RAS, Novosibirsk, Russia

15.45–16.00

Parameter fitting infrastructure for rule-based modelling O.S. Sorokina^1, Anatoly Sorokin^2,3 ^1Edinburgh University, Edinburgh, UK; ^2Institute of Cell Biophysics RAS, Pushchino, Russia; ^3Moscow Institute of Physics and Technology, Dolgoprudny, Russia

15:40−15:50

Discussion

15:30–15:45

Improved SBGN (ML) support IN BioUML Ilya Kiselev^1, S. D. Kinsht^3, F.A. Kolpakov^1,2 ^1Design Technological Institute of Digital Techniques SB RAS, Novosibirsk, Russia ^2Institute of Systems Biology, Ltd, Novosibirsk, Russia ^3NSU, Novosibirsk, Russia

Coffee break: 16.00–16.15

16.15–16.30

Optimization of the piggyBac transposon system for cultured Drosophila cells Lyubov Yarinich^1,2*, M.O. Lebedev^1,2, A.V. Pindyurin^1,2 ^1Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia; ^2NSU, Novosibirsk, Russia

16:20 – 16:50

Experimental models for neurodegenerative pathologies studies and neuron-computer interface establishment Sergey Kiselev Vavilov Institute of General Genetics RAS, Moscow

16:10−18:00

Personalized Medicine: New Biomarkers and Molecular Targets Chairs: Vyacheslav Lyakhovich, Sergey Sennikov

16:10–18:20

Poster Session

16.30–16.45

Using the techniques of stochastic modelling and inhomogeneous sequential pattern recognition procedure for the prediction of the development of polygenic diseases V.F. Prokof'ev, A.V. Shevchenko, Maksim Korolev, V.I. Konenkov Scientific Institute of clinical and experimental lymрhology SB RAS, Novosibirsk, Russia

16:50 – 17:10

Epigenome landscape analysis of brain cells identifies putative novel genes active in cortical neuron Fedor Gusev^1-3, Reshetov D^2,3, Mitchell A^4, Andreeva T^2,3, Dincer A^4, Solovyev V^5, Grigorenko A^1-3, Akbarian S ^1,4 and Rogaev E^1-3. ^1Brudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, Worcester, MA, USA ^2 Vavilov Institute of General Genetics RAS, Moscow, Russia ^3ICG SB RAS, Novosibirsk, Russia ^4Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA; ^5Softberry Inc., Mount Kisco, NY, USA

16:10-16:25

From pharmacogenetics to modern pharmacotherapy Valentin Vavilin, Vyacheslav Lyakhovich Institute of Molecular Biology and Biophysics, Novosibirsk, Russia

16.45–17.00

The bioinfornational comparison of CRISPR/Cas system structure of Yyersinia pseudotuberculosis strains isolated from different regions Nadezhda Peretolchina^1, Y.P. Dzhioev^1,2, A.Y. Borisenko^1, E.A. Voskresenskaya^3, A.I. Paramonov^2, L.A. Stepanenko^1, V.I. Zlobin^1 ^1Irkutsk State Medical University, Irkutsk, Russia ^2Scientific Center of family health problems and human reproduction, Irkutsk, Russia ^3Institut Pasteur, Saint Petersburg, Russia

17:10 – 17:30

Aging and longevity from genomic perspectives Andreeva T.V., Gusev F.E., Reshetov D.A., Shagam L.I., Kunizheva S.S., Yigit S., Geyko A.V., Andrey Manachov ., Kuznetsova I., Aliseychik M., Lisenkova A., Lukyanov E., Protasova M., Buzina A.N., Lukiw W.J.d, Byragin A., Grigorenko A. and Rogaev E.I. ^1Institute of General Genetics RAS, Moscow, Russia; ^2ICG SB RAS, Novosibirsk, Russia; ^3Gaziosmanpasa University Medical School, Tokat, Turkiye; ^4Louisiana State University Health Sciences Center, New Orleans LA USA; Departments of Neurology and Ophthalmology, Louisiana State University Health Sciences Center, New Orleans LA 70112 USA; ^eLMBI, National Institute on Aging, Baltimore, MD, USA;^fBrudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, MA, USA

16:25−16:40

Modern biomarkers of coronary atherosclerosis and its complications Juliya Ragino, E.V. Kashtanova, Ya.V. Polonskaya Institute of Internal and Preventive Medicine, Novosibirsk, Russia

17.00–17.15

Theoretical model of mitotic spindle microtubule growth for FRAP curve interpretation Leonid Omelyanchuk^1,2, A.F. Munzarova^1,2, T.Y. Mikhailova^2 ^1Institute of Molecular and Cellular Biology, Novosibirsk, Russia ^2NSU, Novosibirsk, Russia

16:40−16:55

Inverse changes in serum concentrations of inflammatory and angiogenic growth factors in patients with type 2 diabetes Vadim Klimontov, D.M. Bulumbaeva, N.V. Tyan, N.B. Orlov, A.P. Lykov, V.I. Konenkov SICEL, Novosibirsk, Russia

17.15–17.30

Assessment of translation efficency from ribosome profiling and mRNA-seq data I.S. Yevshin^1,2, R.N. Sharipov^1,2, Oksana Volkova^3 ^1Design Technological Institute of Digital Techniques, SB RAS, Novosibirsk, Russia; ^2Institute of Systems Biology, Ltd, Novosibirsk, Russia; ^3The Federal Research Center ICG SB RAS, Novosibirsk, Russia

17:30 – 17: 50

Reconstruction of molecular-genetic networks common for Alzheimer's disease Olga Saik^1, Rogaev EI ^1-3 ^1ICG SB RAS, 630090 Novosibirsk, Russia; ^2Vavilov Institute of General Genetics RAS, Moscow, Russia; ^3Brudnick Neuropsychiatric Research Institute, University of Massachusetts Medical School, Massachusetts, USA

16:55−17:10

Serological markers in rheumatoid arthritis: circulating DNA and autoreactive antibodies Elena Rykova^1,2, A. Sizikov^3, D. Roggenbuck^4,O. Antonenko^5, L. Bryzgalov^6, E. Morozkin^1,7, V. Vlasov^1, P. Laktionov^1,7, V. Kozlov^3 ^1ICBFM SB RAS, Novosibirsk, Russia; ^2Novosibirsk State Technical University, Novosibirsk, Russia ^3Research Institute of Fundamental and Clinical Immunology, Novosibirsk, Russia ^4Brandenburg Technical University, Berlin, Germany; ^5Institute of Molecular and Cellular Biology SB RAS; ^6ICG SB RAS; ^7Academician E.N. Meshalkin Novosibirsk Research Institute of Circulation Pathology, Novosibirsk, Russia

17.30–17.45

Principal organization of physiological regulator Vyacheslav Fedorov Institute of Laser Physics SB RAS, Novosibirsk, Russia

17:50 – 18:20

Discussion

17.45–18.00