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AffiliationFederal State Budgetary Educational Institution of Higher Education "Saint-Petersburg State University",

Annotation
In many developed countries one of the important trends in research is development of Translational Biomedicine. According to the Scopus data, the number of publications with keywords “translational sciences” has increased by more than a hundred times for the last 20 years and its average annual growth is 19,2% during the last 5 years. Public institutes participate in the development of translational biomedicine ( US government established National Center for Advancing Translational Sciences (NCATS) under National Institutes of Health and has invested in translational sciences more than 1 billion USD while European Union has invested about 600 million EUR within the Seventh Framework Programme, Medical Research Council in UK has invested more than 354 million GBP, government of Australia has invested 100 million AUD). Private foundations and corporations (e.g. Tufts Health Plan Foundation established Tufts Clinical and Translational Sciences Institute) and medical communities (European Global Translational Sciences Consortium is aimed at facilitation of cooperation between clinicians, scientists, industry, governments, financial and regulatory bodies, investors and politicians for the development of translational sciences in Europe) also contribute to building up the research facilities in this area. Institutes of translational sciences are established as a part of leading universities (University of Chicago – 9th position in QS ranking, University of Pennsylvania – 13th, Duke University – 23th and others) which develop complex interdisciplinary research and educational programs in translational sciences (Universities of Pennsylvania – 13th position in QS ranking, of Heidelberg – 50th, of Birmingham – 62th, of Helsinki – 69th, of Boston – 79th, of Groningen – 97th and others). Unfortunately, only 30 of the 175 000 research articles with the keywords «translational sciences» that were published during the last 5 years have affiliation to the Russian Federation (according to the Scopus data). It can be easily seen that at the present moment Russian Federation is lagging far behind in the area of translational biomedicine – in the number of research projects and publications, as well as in organizational, institutional and financial support. This is the reason why implementation of the interdisciplinary research program “Translational Biomedicine in SPbSU” has undoubted scientific and practical relevance to the development of fundamental and practical biomedical science in Russian Federation. Research areas of the complex program “Translational Biomedicine in SPbSU” Biobanking and its application to the complex biomedical studies of the foundations of human health and longevity (Professor Yu. O. Chernoff). Modern molecular genetic methods allow to decipher personalized (biologically and genetically determined) health-related characteristics, uncover the risk of the development of diseases with the heritable predisposition, and to develop recommendations for disease prevention and treatment. The critical element of such studies is the availability of the large collection of samples with the documented origin, that can be used for the high-throughput molecular genetic and biochemical analysis. The major goal of the given research direction: To build the first Russian multifunctional Biobank on the basis of SPbSU, for the purpose of complex biomedical and biopsychosocial studies of the foundations of human health, for the uncovering of genetic and ecological risk factors, and for development of new personalized approaches to prophylactics, diagnosis and treatment of complex (in particular, neurodegenerative and cardiovascular) diseases. The key objectives of the SPbSU Biobank include collection and organization of the long-term storage of biological samples, obtained from persons with documented biographical and medical characteristics; use of these samples for studies in SPbSU, including those with participation of interested Russian and foreign partners; education, training and retraining of the specialists in biomedicine and health-related disciplines. The major infrastructural components, established within the framework of the project, will include the cryostorage of biomaterials (DNA, RNA, body fluids, cells, tissue samples, etc.), and the broad network of the SPbSU biomedical laboratories and partner medical organizations at St. Petersburg, aimed at comprehensive clinical, laboratory and psychological monitoring of the population, collection of biomaterials and documentation of samples, data analysis and organization of prophylactic measures in the identified risk groups. In contrast to other structures positioning themselves as Biobanks, the development of the SPbSU Biobank will be based on the fundamental principles established in the international community, such as: information openness, availability of materials for researchers, high quality of documentation and lack of bias, expert legal support and high ethical standards (Principles and Practice in Biobank Governance, Eds. J. Kaye and M. Stranger, Ashgate Publishing Co., 2008, ISBN: 978-0-7546-9619-3). This will enable the SPbSU Biobank to be efficiently incorporated into the international Biobank network. The SPbSU Biobank will be created as a project of the Development Program, therefore the funding for the priority direction of development “The human and human’s health,” committed in accordance to the decision of the Russian Federation Government, will be considered as the co-financing of the Complex Research Program “Translational biomedicine in SPbSU”. Algorithmic Biotechnology (Professor P. A. Pevzner) Recent revolution in bio-medical technology has led to the accumulation of enormous amount of data, analysis and interpretation of which is hard to imagine without the use of powerful computers and efficient methods for large amounts of information processing. The demand of such analysis gave birth and caused a rapid growth of the new science called bioinformatics. New algorithms and analytical methods development for biological and medical research represent one of the main goals of bioinofrmatics. The rapid growth and intensive development of biotechnology, diversity as well as broad area of its application requires quick response to constantly changing analytical needs. In order to develop computational technologies needed to accomplish the goals of proposed program and to analyze huge amount of genomic and proteomic data we are going to create a Center for Algorithmic Biotechnology (CBAB) SPbSU. The Center will primarily focus its efforts on three major tasks: the analysis of the results of DNA sequencing, sequencing of antibodies and sequencing for new antibiotic drug development. As a result of our efforts we will develop new mathematical algorithms and computer approaches for medical and biological tasks planned to be solved in the frame of this project. We also will develop user-friendly software easy and convenient to use by researchers with different computational skills. Another result will be the creation of an interdisciplinary educational program aimed to facilitate and improve science, technology and innovations in Russia. Our work will be closely related to the objectives of the groups of Professors Krasavin (Design and synthesis of new biologically active compounds), Chernoff (Biobank), Gainetdinov (Transgenic animal models) and Tennikova (Targeted drug delivery) and will be a tool for systematic bioinformatic analysis of the data obtained by the colleagues and serve as a link between scientific research and its implementation in practice. Transgenic animal models of human disorders (Professor R.R. Gainetdinov) Currently, genetically altered animals have become very useful tools to model human diseases that have genetic cause of the disorder, such as majority of neurological, psychiatric, cancer, immune, cardiovascular and other disorders. These models allow testing effectiveness and safety of potential therapeutics before the start of clinical studies, thereby reducing time-related and financial risks related to drug development process. The aim of this project is to create an original collection of the most appropriate experimental models of human disorders on transgenic mice and rats. On these newly created transgenic models we will perform detailed studies involving a range of molecular, biochemical, neurochemical and behavioral approaches. Particularly, we plan to develop and use models of psychiatric and neurological disorders that will be created based on targeted alterations of critical neuronal circuits within the basal ganglia and frontal cortex. In future, we plan to extend this library of human disease-related animal models to lines of mutants relevant for cardiology, diabetes, Alzheimer’s disease, Parkinson’s disease as well as cognitive and psychiatric abnormalities on the basis of information gained by genomic or proteomic analysis of the Biobank samples at SPBSU. The major feature of this direction is a combination of basic research and commercialization principles. Thus, studies on new drug target validation performed on transgenic animals are not only subjects of intellectual property (patenting) and commercialization but also should lead to long-term collaborations with pharmaceutical companies involved in the development of new treatments for brain disorders. One of the most important results of the studies by using these genetic models will be an understanding of the contribution of various neurotransmitter systems in the manifestation of mental pathology-related processes that will allow: - To develop and test new therapeutics for the treatment of schizophrenia, bipolar disorder, attention deficit hyperactivity disorder (ADHD), depression, Parkinson’s disease and Alzheimer’s disease. - To identify and validate new effective drug targets - To gain novel insight on the mechanism of action of various therapeutic drugs. Within this direction we plan to develop new transgenic animal models on the basis of information gained by genomic or proteomic analysis of the Biobank samples at SPBSU. These models will be used to identify and validate new molecular drug targets and develop innovative therapeutics for the treatment of these disorders in collaboration with pharmacological groups within the program “Translational Biomedicine at SPBSU”. Molecular design and synthesis of new biologically active compounds as innovative drug leads (Professor M. Yu. Krasavin) There will always be a constant need for new biologically active compounds that are created within the current understanding of drug design principles. The pharmaceutical industry, even if it continues to operate within the biological space of known, clinically validated targets, will continue to require new chemotypes with improved properties and proprietorship position. As far as translational science is concerned, its entire process that is based on discovery and validation of hitherto unknown biological targets may stall if no molecular tools for modulating these targets are promptly identified and no proof of principle for the newly proposed therapeutic approach follows. The expensive antibodies aside, so-called small molecules (quite often, heterocyclic compounds with molecular weight lower than 500 Da) are most popular as molecular tools for therapeutic intervention. In the initial phase of our program, we will focus on the design, synthesis and biological annotation of such new small molecule compounds for a selected set of already validated biological targets within the therapeutic areas of oncology, inflammation and infectious disease. In the meantime, other groups within the created Center for Translational Biomedicine will be validating new and promising biological targets that will determine the subsequent focus of our research. In this project, we chose to capitalize upon the strongest aspects of our synthetic and medicinal chemistry expertise, namely, de novo design of drug leads based on: 1) Multi-Component Reactions (‘the MCR platform’) and 2) bioactive Natural Product modifications (‘the NP platform’). As a result of our efforts, a new set of highly effective, new, small chemistry tools will be created. These will be used to further validate the new targets discovered within the Center, some of them will turn into leads for drugs with a novel mechanism of action. Moreover, we will create a critical mass of structurally new, well characterized lead compounds. The latter can substantially expand the arsenal of developable chemotypes and strengthen the position of SPBSU as an academic drug discovery research center. Our activities in this project will be tightly integrated with the groups of Bioinformatics (Prof Pevzner), Biobank (Prof Chernoff) and Transgenic animal model group (Prof Gainetdinov) and will be, to a large degree, dependant on the outcome of the new target validation by these groups. Likewise, our research will require a high degree of integration with the Targeted Drug Delivery group (Prof Tennikova). In particular, the latter interaction will help us solve a long-standing problem of delivering inhibitors of pathogenic microorganism’s vital enzymes across the bacterial cell wall. Biodegradable nanoconstructs for pharmacology: the development of biomimetic systems for drug delivery and blockage of pathogens (Professor T. B. Tennikova) The urgent task of the modern public health care is a development of brand-new, «smart» drug formulations capable to provide a superior therapeutic efficiency with minimal side effects. Moreover, the research in this direction might be able to lead to unexpected decisions when choosing therapy for various diseases, including widespread and extremely dangerous ones. In particular, biodegradable nanocontainers with stipulated physical and chemical (particle size, size distribution, degradation rate of chemical bonds defined by a structure of polymer), characteristics of nanoparticles as well as biological (biomimetic) properties of their surface, which smoothly invaded in the natural processes of human body, enable to provide such results. The aim of the research planned in this scientific field, is the design and synthesis of special biologically functionalized nanoconstracts based on nanoparticles of various chemical nature, which have been recently developed in our team. The methods of biological functionalization of nanoparticle surface for addressed drug delivery to specified biological targets with properties of blocking the pathogens of various origins to facilitate their rapid clearance from the body by phagocytosis will be developed. The developed nanoconstructs and means of their medical application certainly are matters of patent protection and application in pharmaceutical industry. Reducing the risk of side effects due to the accurately designated molecular targets and reduction of time for therapy determines the social significance of the results and may have significant economic benefits. Application the unique information of the multifunctional Biobank SPbSU and bioinformatics tools for searching of specific sequences of natural biopolymers in order to select the optimal complementary pairs and in silico modeling of highly specific intermolecular interactions will allow functionalization of nanoconstracts to develop the new personalized approaches to diagnosis and treatment of various diseases. Accomplishment of the five directions of the projects mentioned above will build up in SPbSU a unique center of interdisciplinary translational research, under the framework of which each of the directions will be developed according to the logic of the corresponding science and simultaneously interact with the other research groups to complement and to enhance the research carried out in the other directions. As a result of realization of the joint scientific program in SPbSU will be formed a unique scientific community (that will be extended in future), which consolidate the efforts of clinicial, researchers in various field of natural and social science and humanities to generate fundamental knowledge which form the basis for solution of biomedical practical problems, such as synthesis of novel bioactive compounds, design of targeted drug delivery materials, technologies and routines of diagnostics under the framework of applied translational research.

Expected results
Anticipated results One significant trend in current biomedical and public health research is a rapid growth of a new discipline of Translational Medicine that aims to improve the health of individuals and the community by “translating” scientific interdisciplinary findings into diagnostic tools, medicines, procedures, policies and education. In essence, translational medicine integrates diverse medical and non-medical disciplines especially within the area of biomedical research, with a focus on cross-functional collaborations (e.g., between researchers and clinicians) by leveraging new technology and data analysis tools to translate it to new approaches to clinic. This trend has been culminated by the creation of National Center for Advancing Translational Science (NCATS) established the National Institutes of Health (NIH) in December 2011 in USA to transform the translational science process so that “new treatments and cures for disease can be delivered to patients faster.” Currently up to 60 local centers of translational medicine are created and funded by NCATS in USA via The Clinical and Translational Science Awards. Similarly, EU has also made a major push to fund translational medicine and the European Commission is targeting a majority of its biomedical research budget to support translational science. According to Scopus data the number of publications with the keywords «translational sciences» grew two orders of magnitude during the last 20 years and average (5 years) annual growth is 19.2%. Unfortunately, only 30 of the 175 000 scientific articles with the keywords «translational sciences» that were published during the last 5 years have affiliation to the Russian Federation (according to Scopus data). One has to admit that at the present moment the Russian Federation is lagging far behind in the sphere of translational biomedicine – in the number of research projects and publications, as well as in organizational, institutional and financial support. Our project is aimed to create the Center of Translational Biomedicine at SPBSU that will be pioneering effort to bring Russian clinicians and researchers of different fields together to speed up application of newly developed approaches to clinical practice. Research directions of the program «Translational Medicine in SPbSU» Biobanking and its application to the complex biomedical studies of the foundations of human health and longevity (Professor Y.O. Chernoff) In the course of this direction of research, the Regional (eventually, National) Biobank for the storage of biological materials (up to 100,000 samples from 20,000-30,000 individuals) to perform large-scale studies will be organized. Particularly, the whole genome sequencing (WGS) analysis of Biobank samples will be performed. Results of this study will be analyzed together with the data from the clinical and laboratory analysis, and with the studies of symptomatic and environmental factors that may have an impact on the early onset of the disease with a hereditary predisposition or rehabilitation procedures. Socio-psychological factors influencing the success of recruitment of the representatives of various groups of the population for donations to Biobank will be also studied. Based on these data, recommendations will be formulated to address the social and psychological barriers to the development of biobanking in Russia. Samples and information, collected in Biobank will be used for the complex biomedical and biopsychosocial studies in populations described below. Analysis of the genetic predispositions and environmental risk factors for neurodegenerative (e. g. Alzheimer’s disease, Parkinson’s disease, etc.) and other amyloid (e. g. type II diabetes) diseases will be performed in respective patient groups. Recommendations for disease prevention and new procedures for amyloid detection and early non-invasive molecular diagnosis will be developed. Analysis of the genetic predispositions to complex reproductive and cardiovascular (ischemic heart disease, hypertension, obesity, etc.) diseases in various population, nosological, reproductive and age groups. Genetic and epigenetic markers with prognostic significance for evaluation of the genetic predisposition to human reproductive system disorders and to socially important cardiovascular diseases will be uncovered. Based on this information, approaches and recommendations for personalized medicine of these diseases will be developed. Studies on the role of ecological factors (such as hypoxia in the natural and artificial conditions), rehabilitation procedures and heredity on the efficient recovery of a human organism (including analysis of biomaterials of the patients undergoing rehabilitation and sportsmen exercising extensively in hypoxia conditions) will be performed in normal population. Markers with prognostic significance for determining the influence of physical conditions on the functional state of the organism, and for the development of individual rehabilitation programs and assessment of the efficiency of various rehabilitation procedures will be uncovered. Innovative components and programs for monitoring the physical conditions of students will be developed, that incorporate outpatient, laboratory and scientific levels of monitoring. Defects leading to the cognitive malfunctions, resulting in various diseases, such as attention deficit hyperactivity disorder (ADHD) and, dyslexia and dysgraphia, specific family speech distortions, autism, schizophrenia and depression will be studied in patients. Mechanisms of origin and functioning of language and higher cognitive functions will be studied and methods for diagnosis and correction of defects in higher cognitive functions will be developed. Social and psychological factors that are most closely associated with the manifestation of the disease and treatment outcomes for patients with some socially important and dangerous diseases will be uncovered. Results will be published in international scientific journals. In the course of the project, undergraduate and graduate students, doctorants and interns will be trained for the expertise in biobanking. The Biobank will provide a foundation for the functioning of the Translational Biomedicine Center at SPbSU as a source of materials for the subsequent analysis and translation of accumulated knowledge into the animal models and development of new diagnosis and therapeutic approaches. Algorithmic Biotechnology (Professor P. A. Pevzner) The ongoing revolution in biomedical sciences would not be possible without recent advances in genomic and proteomic technologies. These technologies provide massive arrays of information that would not be possible to analyze without recent breakthroughs in algorithmic biology. Since computing has become an integral part of life sciences, development of modern biotechnology in Russia will not be possible without development of computational technologies for analyzing Big Data generated in genomics and proteomics. The proposed Center for Algorithmic Biotechnology (CBAB) will develop algorithms for three key directions: DNA sequencing (with emphasis on single cell genomics of pathogens, cancer, and brain cells), antibody sequencing (with emphasis on polyclonal antibodies), and antibiotics sequencing (with emphasis on a unique but unexplored collection of antibiotics in Russia). These projects will contribute to establishing the Bioinformatics Program and promoting interdisciplinary computer science in Russia. The additional goal of these efforts will be the development of a multi-disciplinary Training Program that will contribute to advancing science, technology, and innovation in Russia. With access to world-class computational talent in Russia and worldwide, CBAB will turn SPbSU into a world-leading university in the rapidly growing area of bioinformatics. In each of the focus areas, CBAB will connect leading computational experts with leaders in experimental technologies. CBAB is an interdisciplinary project that will bring together students and researchers with diverse backgrounds in computer science, mathematics, biology, and other disciplines. CBAB will also benefit from interactions with its Industrial Partners which include Illumina, BioNano, and Life Technologies (the leaders in sequencing technology), Genentech (the leader in the antibody industry), DNAnexus (the leader in computational genomics), Digital Proteomics (the leader in antibody sequencing), EMC (the leader in Big Data analysis with a large R&D center in Russia), BioCad (the leading antibody company in Russia), and AlkorBio (the leading medical genomics company in Russia). CBAB will be also associated with Chebyshev Laboratory at SPbSU (founded by Dr. Smirnov) that emphasizes applications of mathematics in various disciplines and has world-class expertise in probability and combinatorics, important techniques in bioinformatics. CAB will also collaborate with the University of California at San Diego on various projects, with an emphasis towards biomedical conditions and drugs of importance to Russia. In particular, we will investigate the specifics of the human microbiome and its relevance to diseases in the Russian population (collaboration with AlkorBio) and analyze the collection at the Gause Institute for New Antibiotics (GINA), a potential gold mine for new antibiotics. Finally, significant effort will be focused on the development of Scalable, Flexible, and Accessible Bioinformatics Software (SAFe) as a robust and user-friendly software tool for routine bioinformatic analysis. This will provide SPbSU with a bioinformatics identity in the cyberspace. In particular, the availability of SAFe software platform will be critical for analysis of large volumes of data gained from genomic and proteomic studies of samples that will be collected in Biobank at SPbSU as a part of this project. Thus, within CBAB we plan: 1) to develop new technologies for genome, antibody, and antibiotics sequencing and analysis, 2) to develop a multi‐disciplinary research and training program in algorithmic biotechnology, 3) to collaborate with leading academic institutions and companies in Russia and abroad to apply the developed technologies to genomics and drug discovery, 4) to train the next generation of Russian scientists and to provide scientific and entrepreneurial leadership in biotechnology at SPbSU, 6) to generate intellectual property and to translate it into new products. All these tasks will be crucial for nurturing future effort in the development of Center for Translational Biomedicine at SPbSU. In summary, CBAB will provide technology and educational leadership at SPbSU and will impact genomics and drug discovery efforts in Russia. CBAB will contribute to interdisciplinary computer science (an area that hardly exists in Russia today) and to the Bioinformatics Program at SPbSU, which will involve faculty from many SPbSU departments. CBAB will bring expertise in diverse disciplines to SPbSU, including algorithms, machine learning, probability/statistics, combinatorics, Big Data analysis, genomics, proteomics, microbiology, and antibiotics analysis. Generally, CBAB will be critical to analyze large volume of medical diagnostic, genomic, proteomic and other information gained from Biobank samples to coordinate future research directions of other groups within the Center of Translational Biomedicine at SPBSU. Transgenic animal models of human disorders (Professor R.R. Gainetdinov) One of the key components of studies in the field of Translational Medicine is a translation of accumulated knowledge on the etiology and pathology of human disorders, gained by various biomedical approaches including genetic and proteomic analysis, into experimental models of human disorders in animals. In turn, these models should be instrumental to understand pathological processes, to identify novel potential drug targets and to search for new drug candidates, and this knowledge should be eventually translated into clinic as novel diagnostic tools or therapeutic approaches. These models are invaluable during the early stages of drug discovery and development, particularly for the identification and validation of novel drug targets, optimization of lead compounds, and assessment of risk and toxicity. Thus, development of most appropriate experimental animal models of human disorders remains a high priority task in modern biomedical studies. Currently, genetically altered animals become very useful tool to model human diseases that have genetic cause of the disorder, such as majority of neurological, psychiatric, cancer, immune, cardiovascular and other disorders. In coming years, the use of genetically modified mice as models of human disorders will remain the forward edge line of research in pre-clinical pharmacology and Translational Medicine. Very recent opportunity to develop genetically-modified rats is an additional factor that significantly enhances scientific novelty and value of this line of research as regard to more precise translation of results of these studies to human disorders and therapeutic approaches. Within this project, we plan to create a collection of the most appropriate models of human disorders on transgenic mice and rats. Initially, we will focus on existing genetic models of brain disorders. Particularly, we plan to use models of psychiatric and neurological disorders that were developed based on targeted alterations of critical neuronal circuits within the basal ganglia and frontal cortex. These genetic animal models of brain disorders such as schizophrenia, bipolar disorder, attention deficit hyperactivity disorder (ADHD), depression and Parkinson’s disease are already proven as valuable tools to study of etiology and pathogenesis of these disorders and search for new methods of pharmacological correction. By using these models, we will be able to understand the contribution of various neurotransmitter systems in the manifestation of mental pathology-related processes. Furthermore, we expect to gain new knowledge of the mechanisms of action of various therapeutic drugs that should bring into focus new drug targets for future drug development to manage these disorders. Such new drug targets are not only subject of intellectual property (patenting) and commercialization but also should lead to long-term collaborations with pharmaceutical companies involved in the development of new treatments for brain disorders. By using these models we plan also to perform new drug screening independently or in collaboration with pharmaceutical companies. In future, we plan to extend this library of human disease-related animal models to lines of mutants relevant for cardiology, diabetes, Alzheimer’s disease, Parkinson’s disease as well as cognitive and psychiatric abnormalities on the basis of information gained by genomic or proteomic analysis of the Biobank samples at SPBSU. On these newly created transgenic models we will perform detailed studies involving a range of molecular, biochemical, neurochemical and behavioral approaches. Thus, the major directions of this project will be: 1. Basic research aimed on the development and validation of novel models of human disorders and uncovering novel molecular targets for treatments of these disorders. Based on these studies and in-house screening, a portfolio of new pharmacologically active molecules for several disorders will be developed. 2. Pre-clinical pharmacological studies in collaboration with Russian and international pharmaceutical companies 3. Educational activities aimed at training specialists in SPBSU in this field. Molecular design and synthesis of new biologically active compounds as innovative drug leads (Professor M. Yu. Krasavin). Development of new biologically active compounds as future small-molecule therapies is a critical and integral part of the Translational Medicine paradigm. Therefore, within this project we will establish and develop a world class research program specifically aimed at design, synthesis and biological annotation of innovative drug leads. Today’s drug discovery is faced with a serious productivity crisis. On top of the exceedingly high cost of new pharmaceutical development, the number of new approved drugs has been steadily declining. The ever-increasing infrastructure investment by the industry that was the case until very recently, has not produced a desired effect on productivity. The pharmaceutical science and industry are in the middle of re-thinking the foundations of the R&D process. More emphasis is likely to be put on open innovation, heuristic and out-of-the-box approaches that are traditionally associated with academic science. The latter is likely to play the central role in changing how new drugs will be discovered in the 21st century. In the upcoming decades, it is the drug leads currently developed in the academic institutions (and various associated startup companies) that will constitute the core of the new drugs advanced into the clinic. One of the fundamental problems that may have led to the existing pharmaceutical industry crisis is the insufficient emphasis that was put on the overall quality of the investigated chemical series. Fortunately, several program principles for the near-future biomedical chemistry research have been put forward which are aimed at rectifying the existing crisis. Two such principles constitute the core of the present research project: 1) development of the synthetic platform approach toward new biologically active compounds – where we will develop our key strength, the innovative multi-component reaction platform (‘the MCR platform’), and 2) using the currently known and accessible biologically active Natural Products or analogs thereof, their chemical transformation by means of introducing various pharmacophores to develop a set of new generation drug leads with improved bioactivity and pharmaceutically relevant physicochemical properties (‘the NP platform’). Currently, we have amassed a significant number of preliminary data on a range of therapeutically important biological targets. Continued focus on these targets will constitute the commencement phase of this project. This will enable us to create a critical mass of skills and competencies within the team that will be put together (and also earn a good level of starting recognition via team’s publications) in the area of synthetic organic, medicinal chemistry, new drug design and various preclinical aspects of drug development. Further on, however, the logic and the priorities of our research will be primarily dictated by the results obtained by other groups within the Center for Translational Biomedicine at SPbSU. It is expected that success in genetic and proteomic analysis of samples at SPbSU Biobank and recapitulation of pathologic mechanisms in transgenic animals will bring several new potential drug targets for human disorders, particularly, heart and brain disorders. We will use this knowledge to apply our innovative medicinal chemistry and drug design approaches toward developing first-in-class modulators (inhibitors or potentiators) for these targets. Thus, the availability of the new validated biological targets, transgenic animal models (particularly, for disease modifying efficacy studies) and the innovative chemistry tools will enable many translational aspects in this project. It will also integrate seamlessly with the fifth research area in this project which is targeted drug delivery. Biodegradable nanoconstructs for pharmacology: the development of biomimetic systems for drug delivery and blockage of pathogens (Professor T. B. Tennikova) Finally, creation of new technologies of delivery of active compounds constitutes the logical development of drug development process and such studies will contribute significantly to improved quality of newly created therapeutic approaches in clinic. Highly specific molecular recognition represents the one of fundamental principles of functioning of living systems and defines all the most important molecular-biological processes in organism, including hormone-receptor and antigen-antibody interactions, matrix biosynthesis, enzyme reactions, transmembrane transport of substances, etc. The application of this principle to the development of artificial biodegradable nanocomposites complementary to the accurately defined molecular targets can be counted as extremely efficient therapeutic strategy that can provide a high selectivity and specificity of recognition, planning of strong binding and transfer of different drugs during the analysis of pathological states of organism on molecular level. This biomimetic approach is absolutely innovative and will allow enhancing the efficiency of therapy and minimizing its side effects. Thus, the common goal of this project is the development of principles of novel strategy of therapy of dangerous and socially important diseases, including infectious and autoimmune disorders (virus hepatitises, HIV, tuberculosis, diabetes mellitus, and others). The planned research is aimed to development and optimization of synthetic methods of biodegradable (co)polymers from cyclic derivatives of hydroxy- and aminoacids, in particular, using absolutely novel coordinative organometallic complexes as initiators, as well as the methods of formation of uni-sized nanoparticles of different morphology. The application of original approach to the particle functionalization with different biological ligands to create a biomimetic surface that, in turn, participates specific interaction with pathogen, is supposed in a chemical part of research. The function of described “nanotraps” is based, first, on targeted delivery of multifunctional nanoparticles in a bloodstream to discovered pathogen or receptor, and, second, on the formation of specific complex between surface ligand and corresponding complementary fragment of pathogen particle. The originality of proposed strategy is a possibility of wide variation of ligands' cover, for example, besides the specific to targeted object ligand, the introduction of molecular vectors providing the secondary interaction of formed complex with the cells of immune system that promote its elimination from a blood, is also planned. Recombinant fragments of proteins involved in pathogenesis of described diseases will be used in the project. To achieve that, we will use bioinformatics tools including comparative genomics and proteomics, which is ideal for searching of short specific sequences of proteins, viral particles, pathogens, cells, etc., selection of optimal complimentary pairs and in silico simulation of highly specific protein-protein, protein –peptide etc. interactions. Biosynthetic method will be used to obtain the fragments of complementary proteins that be used for a construction of artificial models of corresponding biological structures. The construction of such models will allow the preliminary in vitro evaluation of specific pathogen-receptor interactions by methods developed by authors involving high speed affinity chromatography on monoliths and analysis on the chips of the same operative surface morphology. All described biological ligands are planned to be synthesized by the method of solid phase peptide synthesis. The separate steps of research will be devoted to in vitro investigation of intracellular (macrophages) degradation of inner nanoparticles of different chemistry using encapsulated phosphorescent organometallic complexes, and, finally, to in vivo approbation of suggested strategy on experimental animals. The accumulated knowledge and further progress of the technology will be instrumental to obtain the nanoconstructions of addressed intracellular action that will significantly enlarge their application fields, for example, in therapy of genetic diseases, including the genetically defined brain disorders. The main aim of the proposed research is the development and preliminary approbation of a novel strategy for the therapy of complex diseases. The chosen disease models are extremely widespread in the World and require complex and quite expensive but not always successful treatment. The development of innovative medicinal remedies in general has high social significance and economic impact. Within the project, it is planned to use methods of polymer, colloidal, fine organic, bioorganic and inorganic chemistry, biochemistry, molecular and cell biology and experimental medicine, therefore the project requires interaction between the specialists in chemistry and biomedicine. In particular, the development and optimization of methods of synthesis of biodegradable polymers based on cyclic derivatives of hydroxy- and aminoacids with the use of novel organometallic coordinative compounds which were tested as the catalysts of different organic reactions but never applied as initiators of ring opening polymerization, represents principal scientific novelty and significance. The polymerization of aminoacid carboxyanhydrides, where the amines of different molecular structure are only used as initiators, represents a particular case of novelty. The comparison of efficiency of biospecific interactions established by investigation of biosynthetic (protein fragments) and synthetic (peptides) complementary pairs will be important for a direct evaluation of influence of polypeptide space conformation on its ability to bind the molecule of partner. The formation of particles with controlled and quite narrow size distribution using ordinary and double emulsion methods also has important scientific and practical value due to strong interest to the addressed drug delivery systems worldwide. The development of original method of biological functionalization of nanocontainers for several medical applications may have important impact both for chemical and biological scientific fields. The new approach for the construction of biomimetic systems, with a possibility to encapsulate the additional drug inside the particle may result in the reduction of costs of drug therapy and thus have economic impact. The decrease of side effect risks caused by shortening of therapy time may have also important social consequences. The program as a whole is aimed at building up the Center of Translational Biomedicine that will incorporate existing strength of clinicians and researchers of various fields at SPbSU. This Center will provide translation of information and knowledge from the patients problems via biobank collection and large scale systematic analysis of the accumulated information to identification of pathological mechanisms and new drug target validation in animal models to the synthesis of biologically active compounds and development of novel principles of drug delivery that eventually will be eventually brought back to patients in clinic. While it is clear that these five directions cannot cover all the fields of Translational Medicine, nevertheless these directions are the most critical to integrate clinical and psychological (cognitive science) observations, genomics, proteomics, systems biology and other high-throughput technologies, transgenic animal models and new principles of pharmacology (synthesis and targeted drug delivery) on the basis of systematic analysis of information from biomedicine, humanities and social science. The integration of this sort will make possible, probably for the first time in Russia, to establish within the project strong interdisciplinary links, which form a solid background for development of a new approach to the solution of problems in public health and personalized medicine. Needless to say, it will create much needed infrastructure (SPF vivarium, biobank, computational tools) at SPBSU to extend this Center to additional directions of Translational Medicine in future and give a unique opportunity to SPBSU students to get knowledge and experience in rapidly growing field of Translational Medicine.

Annotation of the results obtained in 2018
The complex research program ‘Translational biomedicine at SPbSU’ has been conducted in 2015-2018 under financial support from the Russian Science Foundation (RSF). It encompassed five main research trajectories representing all principal pillars of translational science from idea to bedside, i.e. from target identification through target validation, lead and clinical candidate generation to solving the multifaceted problem of delivering the drug to the patient. The translational path logically commences at the BIOBANK stage (the first trajectory of the Program) where healthy vs. patient-derived tissues are collected and comparatively genotyped to identify possible genetic origins of the disease. These findings, when properly analyzed via ALGORITHMIC BIOINFORMATICS (the second research trajectory of the Program), can deliver initial information about potential novel targets for therapeutic intervention. This initial target identification information needs to be validated via target validation experiments where the involvement of the target in the disease process (or its relief) is evaluated via research involving TRANSGENIC ANIMALS (the third research trajectory of the program). A validated target is valuable by itself but in order to arrive at efficacious therapy acting by modulation of this target, small molecule chemistry efforts should be deployed. MEDICINAL CHEMISTY AND DRUG DISCOVERY research (the logically next, fourth trajectory of the Program) aims to identify novel efficacious disease-modifying leads and it achieves it via substantial invention in synthetic organic chemistry, in order to ensure the novelty and intellectual property protection of the drug candidates thus generated. Finally, an active pharmaceutical compound discovered and optimized via medicinal chemistry research will need to be made efficacious for the patient as well as free from adverse effects. This is ensured by developing a targeted DRUG DELIVERY approach (the fifth trajectory of the Program) whereby many unwanted effects and undesired tissue distribution can be avoided by bioconjugation and encapsulation techniques. This ensures the drug delivered to and exerts its beneficial effect at the target and not elsewhere. The RSF funding made it possible to found a standalone Institute within the SPbSU structure – Institute of Translational Biomedicine (ITBM) under the directorship of Professor Raul Gainetdinov. All research activities funded by the RSF were therefore conducted under the auspices of the newly created Institute. Today, at the end of 2018, Institute of Translational Biomedicine of St. Petersburg State University brings together leading Russian specialists in various areas of biomedicine, from fundamental studies of proteins and genomes (Yuri Chernov, Andrey Glotov, Nikolai Skrynnikov, Oleg Shuplyakov, Alexey Tomilin) to bioinformatics ( Pavel Pevzner, Alexander Kanapin), key aspects of pharmacology (Raul Gainetdinov, Mikhail Krasavin, Tatyana Tennikova), biological psychiatry (Alan Kalueff) and development of neuroprosthetics (Pavel Musienko). Thus, 12 laboratories have been created from ground zero within ITBM (http://biomedinstitute.spbu.ru) and today they are fully operational and to a large extent also independent from the RSF Program funding. Altogether, the Institutional Program Grant from the RSF have provided the sizeable seed funding in setting the foundation for translational science at SPbSU which will further operate as a standalone research unit (ITBM) within the University, continuing to attract its own external funding, advancing its current research projects to the commercialization stage and generating research publication output that has not been seen at SPbSU prior to the funding of this Program by the RSF. This has led to a notable and rapid increase in publication outputs of SPbSU in the area of translational science. The less than 100 staff of the ITBM involved in this Program in 2015-2018 have published a staggering 302 research articles (89 out of that number in 2018 alone) with a cumulative impact factor of over 1487 (470 in 2018 alone). Out of that number, 202 papers have been published in Q1 journals which puts SPbSU at the forefront of neuroscience and related biomedical disciplines. Within this short period of time, development of effective collaborative research ties between the five trajectories of ITBM has been made possible. For instance, collaboration between the TRANSGENIC ANIMALS (Prof. Raul Gainetdinov) and MEDICINAL CHEMISTRY AND DRUG DISCOVERY (Prof. Mikhail Krasavin) delivered four patent applications in the area of modulators of trace amine associated receptors, an emerging target class in neuropharmacology. In the field of translational biomedicine, the interests of researchers of different specialities – medical doctors, biologists, chemists, pharmacologists, mathematicians, psychologists are united on advancing practical medicine by translating scientific knowledge into clinical practice. In 4 years the Institute has successfully integrated into the university environment. ITBM scientists actively interact with the Faculty of Medicine and the Faculty of Dentistry and Medical Technologies. New courses, practical classes and educational programs initiated by the Institute of Translational Biomedicine appeared in the curriculum of students and graduate students. Scientific research is carried out in numerous resource centers of the Scientific Park of St. Petersburg State University. At various interdisciplinary scientific seminars, hot topics of biomedicine are regularly discussed. Inclusion in 2018 of the St. Petersburg State University Clinic of High Medical Technologies named after N.I. Pirogov completed the creation of the University's biomedical ecosystem - a set of institutional, infrastructural, human and intellectual resources, focused on obtaining practical results in the field of biomedicine and human health. It is not coincidence that in 2018 St. Petersburg State University first entered the QS World University Rankings by Subject 2018 in such a subject as “Medicine”, and in natural sciences the university rose to 139 position. In the overall ranking of the QS Global World Ranking St. Petersburg State University is already in 235 place. Thanks to the development of the biomedical field, St. Petersburg University was first included in 2018 in the subject rankings of the Times Higher Education (THE) World University Rankings 2018 in the areas of Life Sciences (in the group 201-250), Clinical, Pre-clinical and Health (in the group 401-500) and "Computer Science" (in the group 201-250). Employees, graduate students and students of ITBM actively participate with oral and poster presentations in national and international conferences. Several ITBM scientists are recognized as most cited scientists in Russia in certain fields and received awards from international professional communities. The growing public interest in science in general and in human health, in particular, attracts the active interest of journalists to various topics of biomedicine. Institute staff regularly give large interviews and comments on current events in the scientific world. INFRASTRUCTURE For the success of world-class research, both cooperation between specialists of different disciplines and the availability of modern infrastructure are extremely important. In parallel with the creation of the Institute of Translational Biomedicine in 2010-2018. The University has established several resource centers (“Khromas”, “Development of Molecular and Cellular Technologies”, “Cultivation of Microorganisms,“ Center for Diagnostics of Functional Materials for Medicine, Pharmacology and Nanoelectronics ”), which are included in a single Scientific Park of SPbSU. Laboratories are equipped with modern equipment and highly qualified personnel with experience in biomedical research. In connection with the increased number of tasks and data volumes, new computer facilities were purchased for processing and storing data at the Computing Center of St. Petersburg State University. In 2016, the Biobank Center of St. Petersburg State University began to work in the Scientific Park with a specialized cryostorage of biological materials with corresponding detailed clinical, laboratory and personal information. According to open and equal for all university rules published on the Internet, access to new equipment in all resource centers for research is provided to employees of various scientific and medical organizations. Among them The Russian Clinic and the Research Institute of Obstetrics, Gynecology and Reproductive Medicine named after D.O. Otto, City Hospital No. 40, Sechenov Institute of Physiology and others. In 2018, the Russian Consortium on Psychiatric Genetics was established on the basis of the Biobank Center, which includes leading psychiatric clinics in Russia. Patient samples are collected for subsequent genotyping in collaboration with the International Psychiatric Genomics Consortium (PGC), which is the world leader in the genetics and genomics of mental diseases. In particular, within the framework of a cooperation agreement, 504 blood samples of schizophrenic patients and 504 healthy individuals from a limited list of geographic regions were collected at the Mental Health Research Institute of the Tomsk National Research Medical Center of the Russian Academy of Sciences. The anonymized electronic files obtained during the genotyping were transferred to PGC, where they will be analyzed using samples from patients with schizophrenia and control from around the world. In 2016, the University created a modern vivarium for the maintenance of laboratory rodents, making it possible to create the Center for Transgenic Technologies - the infrastructure basis for the development of genetically modified animals. As of the end of 2018, specialists of the Center successfully developed one line of knockout mice, the development of two more is being completed. The activity of the vivarium and the Biobank Center is aimed at meeting the recognized international quality standards SPF (Specific Pathogen Free) or GLP (Good Laboratory Practice), respectively. The work on integrating the equipment base of the Scientific Park of St. Petersburg State University with educational and medical departments led to the creation of a new resource educational center "Center for Medical Accreditation", aimed to provide a clinical basis for the implementing scientific developments and introducing advanced medical technologies into practical healthcare. In 2018, on the basis of the Center, clinical work has begun on counseling and examining patients at the Clinic of High Medical Technologies named after N.I. Pirogov St. Petersburg State University. And to optimize the formation of practical skills among students, a medical training simulation center with the latest equipment was created. The emergence of this structure was also dictated by the current reorganization of the medical educational system in the Russian Federation, the phased introduction of accreditation of medical and pharmaceutical specialists, as well as the general direction to strengthen the practical orientation of medical education and the formation of a continuing medical education system. SCIENTIFIC ENVIRONMENT Among members of the research team who carried out research in the framework of the unified scientific program "Translational Biomedicine at St. Petersburg State University", there are representatives of all age and qualification groups - from academician born in 1939 to student born in 1994. Thus, the project involves a group of recognized leaders defining the strategy of scientific research, a group of highly professional performers (of which 2/3 are young candidates of science) and a group of young beginners with the most promising undergraduate and graduate students. At the same time, the implementation of a wide range of joint research lines at ITBM St. Petersburg State University draws attention to the program of young scientists - from students to postdocs and young doctors of science. In general, over the years of the program, a productive environment has emerged at St. Petersburg State University for discussions and new projects in the fields of biomedicine involving researchers from cognitive and social sciences to mathematicians. An indicator of the effectiveness of the created scientific environment in the field of translational research is the fact that among the four winners from St. Petersburg State University (the 5th and 6th waves of the contest of mega-grants of the government of the Russian Federation in 2017-2018), three were supported on biomedical topics. Thus, the autoimmunity mosaic laboratory of Y. Schoenfeld (Head of the Center for Autoimmune Diseases named after Zabludovich, Sheva Medical Center at the University of Tel Aviv, Israel); Laboratory of Behavioral Neurodynamics of Yu.Yu. Shtyrov (Head of the Laboratory of Magnetic Electro-Encephalographic Research, University of Aarhus, Denmark); and the new project “Bio-hybrid technologies for modern medicine” of A.O. Hurtti (Professor, University of Helsinki, Finland) were recently started. In 2015-2018 the key research topics of the Center for Algorithmic Biotechnology (CAB) were computational metagenomics and transcriptomics, cancer genomics, immunoproteogenomics. In addition, RSF grant allowed to kick off new cutting-edge research projects, such as new antibiotics discovery and studies of human microbiome, which, indeed, resulted in high-profile papers in the top international journals such as Nature Microbiology, Nature Chemical Biology, Nature Communications, Nature Methods, Cell Systems, Genome Research, Proceedings of the National Academy of Sciences, and others. Overall, 35 papers were published in total, all of which were published in Q1 Scopus and Web of Science journals. In addition, CAB members presented their research projects at top-level international conferences, such as ISMB, RECOMB etc. CAB also organized two international conferences at SPbU — BiATA 2017 and 2018. Worth mentioning, that CAB members received several notable awards such as Scopus Award Russia 2015 (Alla Lapidus), ISCB Senior Scientist Award 2017 (Pavel Pevzner), Web of Science Award Russia 2017 (Alexey Gurevich). However, scientific articles are not the only outcome of these research project. CAB was able to develop and publish multiple software tools for various kind of analysis of biological data, which are currently used by thousands of researchers across the world. 5 of these tools were registered as intellectual property. One of the most successful CAB projects — SPAdes genome assembler — is currently the most popular bacterial genome assembler and has been cited more than 3500 times, which makes it the most cited Russian paper in the past decade in all scientific fields. During the past years, CAB had multiple collaborations with large pharmaceutical companies and top universities all over the world, such as University of California San Diego, Cornell University, Carnegie Mellon University, EMBL, Institute for Agricultural and Forest Systems in the Mediterranean (Catania, Italy), etc. For example, successful collaboration with the Anglo–Swedish multinational pharmaceutical and biopharmaceutical company AstraZeneca has led to the development of new tools for clinical interpretation of NGS cancer data, including instruments for prioritizing cancer mutations, analyzing of circulating tumor DNA and sample identity validation. In the laboratories of ITBM, many students and graduate students of St. Petersburg State University are engaged in modern research. Tight contacts have been established between ITBM and medical institutions of St. Petersburg, especially closely with the City Hospital No. 40, Institute of Obstetrics, Gynecology and Reproductive Medicine named after D.O. Ott, Russian Scientific Center of Radiology and Surgical Technologies (RRTSC). EDUCATIONAL ACTIVITIES The master program 06/04/01 "Bioinformatics" was developed in 2017, and the first group of students was accepted to the program in 2018. This is the first in St. Petersburg and one of the few in the country program for a wide range of bioinformatics that does not focus on any one area of life sciences. The program is aimed at filling the existing shortage of specialists with deep knowledge in the fields of life sciences, mathematics, statistics, programming and methods for analyzing big data. CAB lab members participated in creating bioinformatics master programs for both biologist and informaticians, taught several different courses, held multiple sessions at international scientific schools and workshops (both in Russia and abroad). Many of the students graduated from these educational programs later became members of the lab or continued their career as Ph.D. students in the top world universities. In addition, the lab members participated in creating multiple online courses, including the first-ever Russian bioinformatics online course. In general, over the years of the Institute’s work, changes have been made to the educational standards of basic educational programs of St. Petersburg State University, allowing students to develop competences in various fields of biomedicine and translational sciences. Academic mobility of students between St. Petersburg State University and the leading world universities on various educational programs in the field of biomedicine has been also established. A curious and unexpected experience of participating in educational and outreach activities was obtained in connection with the implementation, jointly with BIOCAD, of a biomedical project for schoolchildren in the framework of the Big Challenges program. The project was successfully implemented in the educational center Sirius 1-25 July 2018 and received a very positive feedback. The project opened a completely new world of molecular biology for schoolchildren: they mastered such basic methods as PCR, DNA and RNA isolation, transcription, and also gained skills to work with the NCBI database to analyze DNA sequences for genome altering CRISPR-CAS technology. The active work of the Institute of Translational Biomedicine of St. Petersburg State University is fully consistent with one of the key areas of the University’s Development Program until 2020 (adopted in 2010) - "Biomedicine and Human Health."

Publications

1. Adinolfi A., Carbone C., Leo D., Gainetdinov R.R., Laviola G., Adriani W. Novelty-related behavior of young and adult DAT-KO rats: implication for cognitive and emotional phenotypic patterns Genes, Brain and Behavior, 17(4):e12463. (year - 2018) https://doi.org/10.1111/gbb.12463

2. Adinolfi A., Zelli S., Leo D., Carbone C., Mus L., Illiano P., Alleva E., Gainetdinov R.R., Adriani W. Behavioral characterization of DAT-KO rats and evidence of asocial-like phenotypes in DAT-HET rats: The potential involvement of norepinephrine system Behavioural Brain Research, pii: S0166-4328(18)30736-8 (year - 2018) https://doi.org/10.1016/j.bbr.2018.11.028

3. Alaverdyan D.A., Mamaeva O.P., Namozova S.Sh., Leshchev D.V., Fedyakov M.A., Polyakova I.V., Shved N.Yu., Aseev M.V., Merkuryeva V.A., Kiergaard A.V., Sarana A.M., Urazov S.P., Smirnov V.V., Maslennikov A.B., Shcherbak S.G., Glotov O.S. Анализ показателей метаболического профиля и полиморфизма генов ACE, PPARA, PPARD, PPARG, PPARGC1A, AMPD1, ACTN3, DRD2A, HTR2A при адаптации к различным видам физической нагрузки Молекулярно-биологические технологии в медицинской практике / Под ред. чл.-корр. РАЕН А.Б. Масленникова. Выпуск 27. Новосибирск: Академиздат, 2018., C. 84-96. (year - 2018)

4. Aleksandrov A.A., Dmitrieva E.S., Volnova A.B., Knyazeva V.M., Gerasimov A.S., Gainetdinov R.R. TAAR5 receptor agonist affects sensory gating in rats Neuroscience Letters, 666:144-147 (year - 2018) https://doi.org/10.1016/j.neulet.2017.12.053

5. Aleksandrov A.A., Knyazeva V.M., Volnova A.B., Dmitrieva E.S., Korenkova O., Espinoza S., Gerasimov A., Gainetdinov R.R. Identification of TAAR5 Agonist Activity of Alpha-NETA and Its Effect on Mismatch Negativity Amplitude in Awake Rats Neurotoxicity Research, Volume 34, Issue 3, pp 442–451 (year - 2018) https://doi.org/10.1007/s12640-018-9902-6

6. Antonova N.A., Eritsyan K.Yu., Tsvetkova L.A. Мнение и установки университетского сообщества к донорству в биобанк Социальная психология и общество., - (year - 2019)

7. Bakulina, O.; Chizhova, M.; Dar'in, D.; Krasavin, M. A General Way to Construct Arene-Fused Seven-Membered Nitrogen Heterocycles European Journal of Organic Chemistry, 362-371 (year - 2018) https://doi.org/10.1002/ejoc.201701642

8. Bakulina, O.; Dar'in, D.; Krasavin, M. Mixed Carboxylic-Sulfonic Anhydride in Reactions with Imines: A Straightforward Route to Water-Soluble Beta-Lactams via a Staudinger-Type Reaction. Organic and Biomolecular Chemistry, 16? 3989-3998 (year - 2018) https://doi.org/10.1039/c8ob00768c

9. Bankevich A., Pevzner, P.A. Joint Analysis of Long and Short Reads Enables Accurate Estimates of Microbiome Complexity Cell Systems, volume 7, issue 2, Pages: 192-+ (year - 2018) https://doi.org/10.1016/j.cels.2018.06.009

10. Baranova T.I., Berlov D.N., Glotov A.S., Glotov O.S., Zavarina L.B., Kachanova T.A., Namozova S.Sh., Podyacheva E.Yu., Shleikina A.V. Генетические детерминанты адаптивных сердечно-сосудистых реакций при имитации ныряния у человека Российский физиологический журнал им. И.М. Сеченова. Т. 104. №7., С. 845-855. (year - 2018) https://doi.org/10.7868/S0869813918070109

11. Barbitoff Y.A., Serebryakova E.A., Nasykhova Y.A., Predeus A.V., Polev D.E., Shuvalova A.R., Vasiliev E.V., Urazov S.P., Sarana A.M., Scherbak S.G., Gladyshev D.V., Pokrovskaya M.S., Sivakova O.V., Meshkov A.N, Glotov O.S., Glotov A.S. Identification of novel candidate markers of type 2 diabetes and obesity in Russia by exome sequencing with a limited sample size Genes. 2018. Special Issue Computational Approaches for Disease Gene Identification., Том: 9. Выпуск: 8. Номер статьи: 415 (year - 2018) https://doi.org/10.3390/genes9080415

12. Belov D.R., Fesenko Z.S., Lakstygal A.M., Gainetdinov R.R., Kolodyazhnyi S.F. Эффект агониста рецептора TAAR5 следовых аминов как модель шизофрении по данным электрокортикографии крыс Российский Физиологический Журнал им. И. М. Сеченова, Т. 104. № 11. С. 000—000. (year - 2018) https://doi.org/10.7868/S0869813918110023

13. Brivio P., Sbrini G., Peeva P., Todiras M., Bader M., Alenina N., Calabrese F. TPH2 Deficiency Influences Neuroplastic Mechanisms and Alters the Response to an Acute Stress in a Sex Specific Manner Frontiers in Molecular Neuroscience, 11:389 (year - 2018) https://doi.org/10.3389/fnmol.2018.00389

14. Chandramowlishwaran P., Sun M., Casey K.L., Romanyuk A.V., Grizel A.V., Sopova J.V., Rubel A.A., Nussbaum-Krammer C., Vorberg I.M., Chernoff Y.O. Mammalian amyloidogenic proteins promote prion nucleation in yeast Journal of Biological Chemistry., 293(9):3436-3450. (year - 2018) https://doi.org/10.1074/jbc.M117.809004

15. Chizhova, M.; Khoroshilova, O.; Dar'in, D.; Krasavin, M. Unusually Reactive Cyclic Anhydride Expands the Scope of the Castagnoli-Cushman Reaction. The Journal of Organic Chemistry, 83, 12722-12733 (year - 2018) https://doi.org/10.1021/acs.joc.8b02164

16. Churilov L., Korzhikov-Vlakh V., Sinitsyna E., Polyakov D., Darashkevich O., Poida M., Platonova G., Vinogradova T., Utekhin V., Zabolotnykh N., Zinserling V., Yablonsky P., Urtti A., Tennikova T. Enhanced delivery of 4-t hioureidoiminomethylpyridinium perchlorate in tuberculosis models with IgG functionalized poly(lactic acid) based particles Pharmaceutics, - (year - 2018)

17. Cinque S., Zoratto F., Poleggi A., Leo D., Cerniglia L., Cimino S., Tambelli R., Alleva E., Gainetdinov R.R., Laviola G., Adriani W. Behavioral Phenotyping of Dopamine Transporter Knockout Rats: Compulsive Traits, Motor Stereotypies, and Anhedonia Frontiers in Psychiatry, - (year - 2018) https://doi.org/10.3389/fpsyt.2018.00043

18. Dar'in, D.; Zarubaev, V.; Galochkina, A.; Gureev, M.; Krasavin, M. Non-chelating p-phenylidene-linked bis-imidazoline analogs of known influenza virus endonuclease inhibitors: synthesis and anti-influenza activity. European Journal of Medicinal Chemistry, 161, 526-532 (year - 2019) https://doi.org/10.1016/j.ejmech.2018.10.063

19. Deal A.L., Konstantopoulos J.K., Weiner J.L., Budygin E.A. Exploring the consequences of social defeat stress and intermittent ethanol drinking on dopamine dynamics in the rat nucleus accumbens Scientific Reports, 8:332 (year - 2018) https://doi.org/10.1038/s41598-017-18706-y

20. Deal A.L., Mikhailova M.A., Grinevich V.P., Weiner J.L., Gainetdinov R.R., Budygin E.A. In vivo voltammetric evidence that locus coeruleus activation predominantly releases norepinephrine in the infralimbic cortex: Effect of acute ethanol Synapse, - (year - 2018) https://doi.org/10.1002/syn.22080

21. Dmitry Meleshko and other American Gut: an Open Platform for Citizen Science Microbiome Research ASM MSYSTEMS, volume 3; issue 3; article number e00031-18 (year - 2018) https://doi.org/10.1128/mSystems.00031-18

22. Dzhuzha A.Y, Volokitina M.V., Korzhikova-Vlakh E.G., Tennikova T.B. Монолитные молекулярно-импринтированные системы для детектирования фенилкетонурии: разработка и изучение свойств. Актуальные вопросы биологической физики и химии., Т.3 № 3. С.636–641. (year - 2018)

23. Efimova O.A., Pendina A.A., Krapivin M.I., Kopat V.V., Tikhonov A.V., Petrovskaia-Kaminskaia A.V., Navodnikova P.M., Talantova O.E., Glotov O.S., Baranov V.S. Inter-cell and inter-chromosome variability of 5-hydroxymethylcytosine patterns in non-cultured human embryonic and extraembryonic cells Cytogenetic and Genome Research., - (year - 2018) https://doi.org/10.1159/000493906

24. Ershov V., Tarasov A., Lapidus A., Korobeynikov A. IonHammer: Homopolymer-Space Hamming Clustering for IonTorrent Read Error Correction Journal of Computational Biology, PMID: 30328692 (year - 2018) https://doi.org/10.1089/cmb.2018.0152

25. Espinoza S., Leo D., Sotnikova T.D., Shahid M., Kääriäinen T.M., Gainetdinov R.R. Biochemical and Functional Characterization of the Trace Amine-Associated Receptor 1 (TAAR1) Agonist RO5263397 Frontiers in Pharmacology, - (year - 2018) https://doi.org/10.3389/fphar.2018.00645

26. Fang X., Monk J.M., Nurk S., Akseshina M., Zhu Q., Gemmell C., Gianetto-Hill C., Leung N., Szubin R., Sanders J., Beck P.L., Li W., Sandborn W.J., Gray-Owen S.D., Knight R., Allen-Vercoe E., Palsson B.O., Smarr L. Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient Frontiers in Microbiology, volume 9, year 2018, page 2559 (year - 2018) https://doi.org/10.3389/fmicb.2018.02559

27. Fedyakov M.A., Polennikova E.S., Ivashchenko T.E., Alaverdyan D.A., Barbitov Yu.A., Polev D.E., Glotov A.S., Sarana A.M., Shcherbak S.G., Maslennikov A.B., Glotov O.S. Сочетание Х-сцепленной и аутосомно-доминантной форм у пациента с врожденным ихтиозом Молекулярно-биологические технологии в медицинской практике / Под ред. чл.-корр. РАЕН А.Б. Масленникова. Вып. 27. Новосибирск: Академиздат, 2018. 256 с., С. 198-203. (year - 2018)

28. Gebhardt C., Mosienko V., Alenina N., Albrecht D. Priming of LTP in amygdala and hippocampus by prior paired pulse facilitation paradigm in mice lacking brain serotonin Hippocampus, - (year - 2018) https://doi.org/10.1002/hipo.23055

29. Glotov A.S., Kazakov S.V., Vashukova E.S., Pakin V.S., Danilova M.M., Nasykhova Y.A., Masharsky A.E., Mozgovaya E.V., Eremeeva D.R., Zainullina M.S., Baranov V.S. Targeted sequencing analysis of ACVR2A gene identifies novel risk variants associated with preeclampsia The journal of maternal-fetal & neonatal medicine: the official journal of the European Association of Perinatal Medicine, the Federation of Asia and Oceania Perinatal Societies, the International Society of Perinatal Obstetricians., P. 1-7. (year - 2018) https://doi.org/10.1080/14767058.2018.1449204

30. Glotov O.S., Romanova O.V., Eismont Yu.A. et al. Comparative analysis of NGS and Sanger sequencing methods for HLA typing at a Russian University Hospital Cellular Therapy and Transplantation. Vol. 7. № 4., Cellular Therapy and Transplantation. Vol. 7. № 4. [In print]. (year - 2018)

31. Guariento S., Tonelli M., Espinoza S., Gerasimov A.S., Gainetdinov R.R., Cichero E. Rational design, chemical synthesis and biological evaluation of novel biguanides exploring species-specificity responsiveness of TAAR1 agonists European Journal of Medicinal Chemistry, 146:171-184 (year - 2018) https://doi.org/10.1016/j.ejmech.2018.01.059

32. Guranova, N.; Dar'in, D.; Krasavin, M. Facile access to 3-unsubstituted tetrahydroisoquinolonic acids via the Castagnoli-Cushman reaction. Synthesis, 50, 2076-2086 (year - 2018) https://doi.org/10.1055/s-0036-1591923

33. Gurevich A., Mikheenko A., Shlemov A., Korobeynikov A., Mohimani H., Pevzner P.A. Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra Nature Microbiology, volume 3, issue: 3, pages: 319-327 (year - 2018) https://doi.org/10.1038/s41564-017-0094-2

34. I. Guryanov, F. Real-Fernández, G. Sabatino, N. Prisco, V. Korzhikov-Vlakh, B. Biondi, A. M. Papini, E. Korzhikova-Vlakh, P. Rovero, T. Tennikova. Modeling interaction between gp120 HIV protein and CCR5 receptor. Journal of Peptide Science., - (year - 2018)

35. I. Tarasenko, N. Zashikhina, I. Guryanov, M. Volokitina, B. Biondi, S. Fiorucci, F. Formaggio, T. Tennikova, E. Korzhikova-Vlakh Amphiphilic polypeptides with prolonged enzymatic stability for the preparation of self-assembled nanobiomaterials. RSC Advances., V. 8. P. 34603–34613. (year - 2018) https://doi.org/10.1039/C8RA06324A

36. Il'ina N.L., Namozova S.Sh. Отношение к студенческому спорту и программе ГТО спортсменов разного уровня студенческого спорта и специалистов, обеспечивающих учебно-тренировочный процесс в ВУЗе Актуальные вопросы физического воспитания молодежи и студенческого спорта: сборник трудов Всероссийской научно-практической конференции 18 мая 2018 года г. Саратов. Саратов: Изд-во «Саратовский источник», 2018. 352 с., С. 65-74. (year - 2018)

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114. - Ученые разрабатывают новый метод целевой доставки лекарств в организм Фармацевтический вестник. Интернет-газета, 6 февраля 2018 г (year - )

115. - 20 молодых и перспективных: рейтинг РБК РБК (Журнал), №6 за июнь - 22 мая 2018 г. (year - )

116. - Математика желудка: ученые поняли, как посчитать полезные бактерии Известия.ру (iz.ru)., Новости портала 28 сентября 2018 г. 16:03 (year - )

Annotation of the results obtained in 2015
One of the major trends in modern biomedicine and research in the field of public health is the rapid development of the translational biomedicine. Its main purpose is to improve the health of every person and of the society as a whole by a “translation” of the results of interdisciplinary research into diagnostic tools, treatments, as well as health and education policies. Therefore, implementation of a comprehensive program “Translational Biomedicine in St. Petersburg State University" has indisputable scientific and practical relevance for the development of basic and applied medical science in Russia. In December 2014, St. Petersburg State University won the competition for RSF grants in the "Implementation of complex scientific programs of organizations" priority area for the development of translational biomedicine at St. Petersburg State University. In February 2015, the Institute of Translational Biomedicine (ITBM) of St. Petersburg State University was established, which since April 1, 2015, has been headed by the renowned neuroscientist Raul Radikovich Gainetdinov. The main objectives of the Institute are the following: - Establishment of a network of interdisciplinary research groups focused on the problems of translational biomedicine; - Fundamental research aimed at studying the pathological processes of human diseases, the identification of new methods of diagnosis and treatment; - Educational activities aimed at training at St. Petersburg State University professionals in the field of translational biomedicine. Main research areas: medical and population genetics, bioinformatics, molecular and cellular biology, neuropsychiatric disease, neuroprosthetics , cardiology, development of medical drugs and methods of their delivery. In 2015, the following eight laboratories were founded as part of the Institute for Translational Biomedicine: 1) Laboratory of Neurobiology and Molecular Pharmacology (R.R. Gainetdinov); 2) Laboratory of Genomic and Proteomic Research (Yu.O. Chernov); 3) Laboratory of Chemical Pharmacology (M.Yu Krasavin); 4) "Centre for Algorithmic Biotechnology" Laboratory (P.A. Pevzner); 5) The Interdepartmental Laboratory of Biomedical Chemistry (T.B. Tennikova); 6) Laboratory of Cell Biology (O.V. Shupliakov); 7) Laboratory of Biological Psychiatry (A.V. Kaluev); 8) Laboratory of Neuroprosthesis (P.E. Musienko). Importantly, the first four laboratories have been established on the basis of this RSF grant, whereas the Laboratories of Neuroprosthesis, Cell Biology, Biomedical Chemistry and Biological Psychiatry operate through other (internal and external) sources of funding. Besides, we already see active cooperation between the research groups, and some interesting research topics are being developed by the laboratories of the Institute together. With further development and additional funding, there are plans to increase the number of laboratories and important themes of research in the field of translational that are developed in the Institute. There is an ongoing start-up and adjustment work on the installation of a modular vivarium, which should be completed in March 2016. It is important that due to the effective import substitution (purchase of a Russian-made vivarium) we now have an opportunity to buy more IVC cages and related equipment, which will make it possible to expand the space for keeping the animals. St. Petersburg State University already has the necessary qualified staff, which means that once the vivarium is put into operation, the colonies of mutant mice and rats will be installed in the shortest time possible. In 2015, the SPbU Institute of Translational Biomedicine took part in more than twenty significant events. Professor Raul R. Gainetdinov made presentations about research conducted at St. Petersburg State University in the field of translational biomedicine and participated in scientific seminars at Bashkir State University (Ufa), at the Institute of Cytology and Genetics, at the Russian Academy of Sciences and the Institute of Physiology of SB RAS (Novosibirsk), as well as at the Chemical-Pharmaceutical Academy (St. Petersburg) and at the Academic Council meeting of the Medical Faculty (St. Petersburg State University). It is worth mentioning that in 2015 the employees of the ITBM altogether published 70 articles (including articles accepted for publication) with St. Petersburg State University affiliation (34 of them are affiliated to SPbU ITBM). It should also be said that publications of the program’s team, according to PubMed, constituted 29 out of the 40 articles on translational biomedicine published by Russian scientists (search: translational biomedicine Russia), whereas publications on this subject include the total of 930 articles, with 400 of them published in 2015. During the first year of the program, testing of CRISPR-Cas techniques was carried out aimed at creating new breeds of transgenic animals. Capabilities of SPbU ITBM enabled the Laboratory for Algorithmic Biotechnology headed by Pavel Pevzner to work on making the process of creating new antibiotics faster and less labor-intensive. Their program SPAdes family based on the well-known genome assembly algorithm SPAdes (more than 400 references in 2015) now includes truSPAdes (accepted for publication in Nature Methods), dipSPAdes (published in J. Comp. Biol.), and hybridSPAdes (published in Bioinformatics). Now the laboratory is developing a program that will help to identify all antibiotics produced in the bacterial colonies and evaluate which of them can be used as a medical drug. This will address one of the major challenges of biomedicine - the problem of bacterial resistance to antibiotics. In the field of the development of new synthetic approaches to the design of drug-like compounds, the participant of the program have developed a fundamentally new space of heterocyclic scaffolds accessible by the Castagnoli-Cushman reaction (Org Lett), which is a major breakthrough in terms of the application area of multi-component chemistry. In such field as the design of nilpotent carbonic inhibitors of human anhydrase, for the first the possibility was demonstrated for obtaining them on the basis of diverse heterocyclic scaffolds. The first large-scale studies were conducted in several line of research simultaneously, which made I possible to create an evidence-based algorithm for the formation of nanostructures for targeted delivery of modern generation drugs. These studies included the following stages: • design and optimization of methods for the synthesis of biodegradable polymers based on hydroxy-and amino acids, in particular in the presence of new, not previously described, catalysts, including enzymes; • a comprehensive analysis of the polymer product (molecular weight, molecular weight distribution, composition copolymers); • a detailed study of polymer degradation in modelled and physiological media in order to establish its mechanism and methods of regulation; • development and optimization of the formation of particles of different nature and morphology of the original methods of surface functionalization, including biological ligands, as well as spin and fluorescent tags introduced into at the sage of the synthesis of primary polymers; • developing the methods of encapsulation and controlled release of model drug compounds and indicator marks; • studying cell cultures of both native nanoparticles and nanocontainers, filled fluorescent compounds, to determine their cytotoxicity, endocytosis capabilities and visualization release tags at the intracellular level. Biobank has been created for storing biological material (more than 5000 samples). Material was collected, questionnaire survey was conducted; informed consent was obtained from group participants of specialized medical offices. Criteria for research have been developed, with a view to the experience of leading world biobanks. Studies of biobank awareness, attitudes to donation, as well as factors of willingness to donate to the Biobank have been conducted. With the help of the "Arch candy" bioinformatic algorithm, a bank of 57 sequences was compiled, containing the genes encoding the known and predicted amyloidogenic proteins and human chaperone proteins. The system of testing the properties of human proteins on the basis of phenotypic detection in yeast has been optimized. New human chaperones have been identified that are potentially involved in the formation and distribution of amyloids. Markers relevant for the diagnosis of hereditary predisposition to socially significant cardiovascular diseases have been identified. A new method for the detection of mutations in complicated pregnancies has been developed. The most effective techniques have been selected for rehabilitation of patients with diseases of the cardiovascular system. Markers for the prediction of the influence of physical stress on the functional state as well as effectiveness of health technologies have been selected. A data bank of different variants of speech activity was created. In 2015, the Biobank resource center of SPbU Science Park participated in the "Alpha-Endo" program (4.9 million rubles). Within this program, the possibilities of genomic sequencing for diagnosis of endocrine diseases are actualized. The results of sequencing patients’ exomes were obtained. For the first time in Russia a prototype has been made for clinical interpretation of data on exome sequencing. Detailed information on the activities of the Institute of Translational Biomedicine can be found at the St. Petersburg State University portal (http://biomedinstitute.spbu.ru/).

Publications

1. - MetaQUAST: evaluation of metagenome assemblies Bioinformatics, - (year - 2015) https://doi.org/10.1093/bioinformatics/btv697

2. - Combining Mass Spectrometric Metabolic Profiling with Genomic Analysis: A Powerful Approach for Discovering Natural Products from Cyanobacteria Journal of Natural Products, 78, 7, 1671-1682 (year - 2015) https://doi.org/10.1021/acs.jnatprod.5b00301

3. - De novo sequencing of peptides from top-down tandem mass spectra Journal of Proteome Research, 14, 11, pp 4450–4462 (year - 2015) https://doi.org/10.1021/pr501244v

4. - Мониторинг функционального состояния членов сборных команд в системе педагогического управления студенческим спортом: отбор значимых критериев. Теория и практика физической культуры., 2016. (year - 2016)

5. - Assembling short reads from jumping libraries with large insert sizes Bioinformatics, 31, 20, 3262-3268 (year - 2015) https://doi.org/10.1093/bioinformatics/btv337

6. - Аритмогенная кардиомиопатия / дисплазия правого желудочка: клинические и молекулярно-генетические особенности. Вестник аритмологии., № 81. 2015. С. 33-41. (year - 2015)

7. - Комбинированные препараты прямого противовирусного действия при хроническом гепатите С. Новый препарат Викейра Пак в терапии хронического гепатита С и ВИЧ-коинфекции. Инфекционные болезни: новости, мнения, обучение, №4 (year - 2015)

8. - Регрессионные модели оценки фенотипических признаков спортсменов на основе анамнестических данных, генетических и лабораторных анализов. Теория и практика физической культуры., № 12 (декабрь). 2015. С. 34-36. (year - 2015)

9. - Awareness and attitudes towards biobanks among Russian students. Psychology in Russia: State of the Art., 8 (4), 2015. (year - 2015)

10. - Reactions of CF3-enones with arenes under superelectrophilic activation: a pathway to trans-1,3-diaryl-1-CF3-indanes, new cannabinoid receptor ligands. Organic and Biomolecular Chemistry, Vol. 13, pp. 8827-8842 (year - 2015) https://doi.org/10.1039/C5OB01072A

11. - New Heterocyclic Product Space for the Castagnoli-Cushman Three-Component Reaction. Organic Letters, Vol. 17, pp. 3930-3933 (year - 2015) https://doi.org/10.1021/acs.orglett.5b02014

12. - Spongosine Production by a Vibrio harveyi Strain Associated with the Sponge Tectitethya crypta Journal of Natural Products, 78, 3, 493-499 (year - 2015) https://doi.org/10.1021/np5009762

13. - The call of the unknown: The story of [PSI+]. Prion., 9(5), (in press). (year - 2015) https://doi.org/10.1080/19336896.2015.1112656

14. - Targeting β-arrestin2 in the treatment of l-DOPA-induced dyskinesia in Parkinson's disease PNAS, 2015; 112 (19): E2517-26 (year - 2015) https://doi.org/10.1073/pnas.1502740112

15. - RuvbL1 and RuvbL2 control protein aggregation and aggresome formation. The EMBO Journal., Vol. 34. № 18. Pp. 2363-2382. (year - 2015) https://doi.org/10.15252/embj.201591245

16. - Genome Sequence of the Atypical Symbiotic Frankia R43 Strain, a Nitrogen-Fixing and Hydrogen-Producing Actinobacterium Genome Announcements, 3, 6, e01387-15 (year - 2015) https://doi.org/10.1128/genomeA.01387-15

17. - Placental microRNA expression in pregnancies complicated by superimposed pre-eclampsia on chronic hypertension. Molecular Medicine Reports., Molecular Medicine Reports, 2015. (year - 2015)

18. - Исследование роли пространственно-частотной фильтрации изображений при оценке возраста и восприятия эмоционального выражения лиц. Оптический журнал., № 82 (10). 2015. C. 65-71. (year - 2015)

19. - Влияние регулярных занятий физической культурой на функциональное состояние организма студентов. Теория и практика физической культуры., № 10 (октябрь). 2015. С. 23-25. (year - 2015)

20. - Lectin-Induced Agglutination Method of Urinary Exosomes Isolation Followed by mi-RNA Analysis: Application for Prostate Cancer Diagnostic. The Prostate., 29 SEP. 2015. (year - 2015) https://doi.org/10.1002/pros.23101

21. - Facile synthesis of pyrido[2,3-d]pyrimidines via cyclocondensation of 4,6-dichloro-2-methylsulfanylpyrimidine-5-carbaldehyde with beta-substituted beta-aminoacrylic esters. Tetrahedron, Vol. 71, pp. 6196-6203 (year - 2015) https://doi.org/10.1016/j.tet.2015.06.085

22. - Phenoxymethyl 1,3-Oxazoles and 1,2,4-Oxadiazoles as Potent and Selective Agonists of Free Fatty Acid Receptor 1 (GPR40). Bioorganic and Medicinal Chemistry Letters, Vol. 25, pp. 3105-3111 (year - 2015) https://doi.org/10.1016/j.bmcl.2015.06.018

23. - Pd-catalyzed amination of imidazolin-1-yl azines: toward a new kinase-inhibitory chemotype. Tetrahedron Letters, Vol. 56, pp. 2827-2831 (year - 2015) https://doi.org/10.1016/j.tetlet.2015.04.059

24. - Brain serotonin deficiency leads to social communication deficits in mice Biology Letters, - (year - 2015) https://doi.org/10.1098/rsbl.2015.0057

25. - Expanding the Described Metabolome of the Marine Cyanobacterium Moorea producens JHB through Orthogonal Natural Products Workflows PLoS One, 10, 7, e0133297 (year - 2015) https://doi.org/10.1371/journal.pone.0133297

26. - Опыт применения шрота расторопши пятнистой для снижения вирусной нагрузки у пациентов с хроническим гепатитом С ВИЧ-инфекция и иммуносупрессии, Т. 8, №4 (year - 2015)

27. - Atom-economical construction of tetracyclic [1,4]oxazepines involving intramolecular arylation of a 2-imidazoline moiety. Tetrahedron Letters, Vol. 56, pp. 5632-5636 (year - 2015) https://doi.org/10.1016/j.tetlet.2015.08.062

28. - Contributions of the prion protein sequence, strain and environment to the species barrier. The Journal of Biological Chemistry., 2015. (year - 2015) https://doi.org/10.1074/jbc.M115.68410 [PMID: 26565023]

29. - Протеомный анализ белковых фракций бактерии Escherichia coli, устойчивых к солюбилизации ионными детергентами. Биохимия., Выпуск 1. 2016. (year - 2016)

30. - Detection of human genome mutations associated with pregnancy complications using 3-D microarray based on macroporous polymer monoliths TALANTA, V. 147, P. 537-546 (year - 2016) https://doi.org/10.1016/j.talanta.2015.09.066

31. - IgSimulator: a versatile immunosequencing simulator Bioinformatics, 31, 19, 3213-3215 (year - 2015) https://doi.org/10.1093/bioinformatics/btv326

32. - Синтез и свойства 2-цианоэтоксипроизводных даммарановых тритерпеноидов Журнал органической химии, Т.51, Вып.11, С.1656-1661 (year - 2015)

33. - Роль полиморфизма генов, ассоциированных с сердечно-сосудистой системой, в формировании гиноидной липодистрофии. Регионарное кровообращение и микроциркуляция., Т. 14. Номер 1(53). 2015. С. 67-73. (year - 2015)

34. - Rapid Conversion of Fibroblasts into Functional Forebrain GABAergic Interneurons by Direct Genetic Reprogramming. Cell Stem Cell, 3;17(6):719-34 (year - 2015) https://doi.org/10.1016/j.stem.2015.09.002

35. - Increased context-dependent conditioning to amphetamine in mice lacking taar1. Pharmacological Research, - (year - 2015) https://doi.org/10.1016/j.phrs.2015.11.002

36. - Targeted next-generation sequencing (NGS) of nine candidate genes with custom AmpliSeq in patients and a cardiomyopathy risk group. Clinica Chimica Acta., №446. (2015). Pp. 132–140. (year - 2015) https://doi.org/10.1016/j.cca.2015.04.014

37. - A theoretical study of annular tautomerism of pyrrolotetrazoles in the gas phase Chemistry of Heterocyclic Compounds, Vol. 51(3) (year - 2015) https://doi.org/10.1007/s10593-015-1692-7

38. - Probing the ‘bipolar’ nature of the carbonic anhydrase active site: Aromatic sulfonamides containing 1,3-oxazol-5-yl moiety as picomolar inhibitors of cytosolic CA I and CA II isoforms. European Journal of Medicinal Chemistry, Vol. 101, pp. 334-347 (year - 2015) https://doi.org/10.1016/j.ejmech.2015.06.022

39. - IgRepertoireConstructor: A novel algorithm for antibody repertoire construction and immunoproteogenomics analysis Bioinformatics, 31, 12, i53–i61 (year - 2015) https://doi.org/10.1093/bioinformatics/btv238

40. A.A. Beljaev, D.V. Krupenya, E.V. Grachova, V.V. Gurzhiy, A.S. Melnikov, P.Yu. Serdobintsev, E.S. Sinitsyna, E.G. Vlakh, T.B. Tennikova, S.P. Tunik Supramolecular AuI-CuI complexes as new luminescent labels for covalent bioconjugation Bioconjugate Chemistry, - (year - 2016) https://doi.org/10.1021/acs.bioconjchem.5b00563

41. Glotov, A.S.; Sinitsyna, E.S.; Danilova, M.M.; Vashukova, E.S.; Walter, J.G.; Stahl, F.; Baranov, V.S.; Vlakh, E.G.; Tennikova, T.B. Detection of human genome mutations associated with pregnancy complications using 3-D microarray based on macroporous polymer monoliths. Talanta., №147. 2016. Pp. 537-546. (year - 2016)

42. Krasavin, M.; Mujumdar, P.; Parchinsky, V.; Vinogradova, T.; Manicheva, O.; Dogonadze, M. Library of diversely substituted 2-(quinolin-4-yl)imidazolines delivers novel non-cytotoxic antitubercular leads. Journal of Enzyme Inhibition and Medicinal Chemistry, 31, 1146-1155 (year - 2016) https://doi.org/10.3109/14756366.2015.1101094

43. Lakontseva, E.; Karapetian, R.; Krasavin, M. New Antimycobacterial Leads from Multicomponent Hydrazino-Ugi Reaction Medicinal Chemistry, 12,191-199 (year - 2016) https://doi.org/10.2174/1573406411666151002130441

44. Lukin, A.; Karapetian, R.; Ivanenkov, Y.; Krasavin, M. Privileged 1,2,4-Oxadiazoles in Anticancer Drug Design: Novel 5-Aryloxymethyl-1,2,4-oxadiazole Leads Targeting Prostate Cancer Letters in Drug Design & Discovery, 13, 198-204 (year - 2016) https://doi.org/10.2174/1570180812999150812164251

45. - In-vivo pharmacology of trace amine associated receptor 1. The European Journal of Pharmacology, 15;763(Pt B):136-42. (year - 2015) https://doi.org/10.1016/j.ejphar.2015.06.026

46. - Exploring the Neurochemical Basis of Alcohol Addiction- Related Behaviors: Translational Research Translational Biomedicine, - (year - 2015)

47. - Synthesis and biological properties of amino acids and peptides containing a tetrazolyl moiety. Russian Chemical Reviews, Vol. 84 (9), pp. 891–916 (year - 2015) https://doi.org/10.1070/RCR4527

48. - Новые препараты прямого противовирусного действия даклатасвир и асунапревир в лечении пациентов с хроническим вирусным гепатитом С и ВИЧ-коинфекцией. Перспективы высокоэффективной противовирусной терапии. ВИЧ-инфекция и иммуносупрессии, Т. 7, №3, С. 17-30 (year - 2015)

49. - Beyond Gene Inactivation: Evolution of Tools for Analysis of Serotonergic Circuitry ACS Chemical Neuroscience, - (year - 2015) https://doi.org/10.1021/acschemneuro.5b00045

50. Chernova, T.A.; Wilkinson, K.D.; Chernoff, Y.O. Prions, chaperones and proteostasis in yeast Prion Biology (S.B. Prusiner ed.), Cold Spring Harbor Perspectives in Biology, 2016 Nov 4. pii: a023663. (year - 2016) https://doi.org/10.1101/CSHPERSPECT.a023663

51. - Modulation of polyglutamine toxicity in yeast. Yeast, September 6-12, 2015. P. 209-210. (year - 2015)

52. - Search for new prions in yeast. Yeast, September 6-12, 2015. P. 210-211. (year - 2015)

Annotation of the results obtained in 2016
One of the major trends in modern biomedicine and public health research is the rapid development of translational biomedicine. Its main purpose is to improve the general health of the society as a whole and of every person in particular by “translating” results of interdisciplinary research into diagnostic tools, treatments, as well as health and education policies. Thus, implementation of a comprehensive programme on “Translational Biomedicine in St. Petersburg State University” has indisputable scientific and practical relevance for the development of basic and applied medical science in Russia. In December 2014, St. Petersburg State University won an RSF grant competition in the “Implementation of Complex Scientific Programs in Organizations” priority area, for the development of translational biomedicine at St. Petersburg State University. In February 2015, the Institute of Translational Biomedicine (ITBM) of St. Petersburg State University was established; the Institute is headed by the prominent neuroscientist Raul Gainetdinov. The new duties as Director of the ITBM and the desire to commit fully to the work on the programme made Raul Gainetdinov leave his position of Senior Researcher at the Italian Institute of Technology (Genoa), and his laboratory in Italy was officially closed in June 2016. The main objectives of the Institute are the following: - Establishing a network of interdisciplinary research groups focused on the problems of translational biomedicine; - Fundamental research aimed at studying the pathological processes of human diseases, as well as identification of new methods for their diagnostics and treatment; - Educational activities aimed at training professionals in the field of translational biomedicine at St. Petersburg State University. The high scientific level of the laboratories working within the ITBM is evidenced by such an author-level metric as the h-index (also known as the Hirsch index), with the scientists heading separate research groups showing the following results: • Laboratory of Neurobiology and Molecular Pharmacology: R.R. Gainetdinov – 63; • Laboratory of Genomic and Proteomic Research: Y.O. Chernoff – 36; • Laboratory of Chemical Pharmacology: M.Y. Krasavin – 16; • “Centre for Algorithmic Biotechnology” Laboratory: P.A. Pevzner – 51; • Interdepartmental Laboratory of Biomedical Chemistry: T.B. Tennikova – 24; • Laboratory of Neuroprostheses: P.E. Musienko – 15. • Laboratory of Cell Biology: O.V. Shupliakov – 37; • Laboratory of Biological Psychiatry: A.V. Kalueff – 37; It is important that active cooperation between the ITBM research groups started already during the first two years of the programme and some interesting research topics are being jointly developed by the laboratories of the Institute. For instance, close cooperation of the laboratories headed by R. Gainetdinov and M. Krasavin has already resulted in preparation of three patent applications for new trace amine-associated receptor ligands to be used as medicines. The majority of programme participants focus their publication activities on preparing papers for high-impact journals (IF≥4) indexed by the Web of Sciences and Scopus, which is reflected in the names of the journals where our scientists publish their works: Nature Methods, Nature Reviews Neuroscience, Nature Medicine, PNAS, Nature Communications, and Nature Chemical Biology. In 2016, ITBM scientists published 70 papers with SPbU affiliation in international scientific journals with the total impact factor of 370.2 (as compared to 63 articles with the total impact factor of 222.3 in 2015). Our publications fall within such key research areas as medical and population genetics, bioinformatics, molecular and cellular biology, neuropsychiatric diseases, neuroprosthetics, cardiology, development of medical drugs and methods of their delivery. The primary objective of the programme as a whole is to unite the efforts of all leading SPbU scientists in order to implement a full range of research activities related to human health — from collection and storage of biospecimens to development of new medicines. One of the major stages of the project was the opening of the Biobank Resource Centre, which started its work in 2016. This is a specialized cryostorage facility for biological specimens as well as clinical, laboratory and personal information. The first biobank in Russia was created with the purpose of achieving global scientific and medical goals, namely, for biomedical research of human health and longevity. A seminar timed with the opening of the SPbU Biobank Resource Centre attracted the leading Russian and European scientists in the field of biobanking and human genetics. Yuri Chernoff, head of the focus area connected with the establishment of the Biobank Resource Centre, was elected Honorary Fellow of the American Association for the Advancement of Science (AAAS) for his achievements in the field of molecular and cell biology. In 2016, a modern centre for work with transgenic animals was opened, with the total area of 380 square meters. The centre can accommodate 4,000 mice and 1,000 rats; it has the necessary floor space for experimental laboratories and is equipped with the most advanced technology. Currently, 6 species of mice and 3 species of rats are kept in the SPbU vivarium. The genome assembly algorithm SPAdes can be regarded as a “signature piece” of the ITBM programme. The algorithm by now has received an important new module for assembling plasmids (plasmidSPAdes), as well as the ability to assemble genomes with the size of up to 500 Mb and the ability to increase the quality of rough, initial assembly to practically the level of a reference genome without the need to use laboratory experiments. Improvements in the work of the metaSPAdes pipeline for metagenomic data sets, which was developed in 2015, have made it highly popular already at the beta-stage. These are just some of the new developments that allow the SPAdes algorithm to keep pace with the most advanced methods and cutting-edge technologies used in genome sequencing. The popularity of the programme has greatly exceeded our expectations – over 5,000 downloads per year. The work on creating a single medical clinic within the University united the resources of the SPbU Health Centre, the SPbU Centre for Restorative Medicine and the St. Petersburg Multipurpose Centre of the RF Health Ministry. The next step would be to transform this network into a single SPbU University Medical Clinic. Even now the makeup of the research team and their approach to scientific investigation have a pronounced multidisciplinary character; at the same time, a further increase in the number of laboratories and lines of research within the field of translational biomedicine is planned following the development of the ITBM. The total number of employees at the SPbU Institute of Translational Biomedicine reached 60 people in December 2016, not including the members of the academic stuff from other University divisions who were also involved in the programme. Following the success of the massive open online course “Introduction to Bioinformatics”, a new online course “Introduction to Bioinformatics: Metagenomics” has been developed, recorded and made available on the popular international Coursera platform. The course is opened December 12, 2016 for Coursera participants, and in February 2017 the course will become available for students on the national “Otkrytoye obrazovaniye” [Open Education] platform. Detailed information on the work carried out at the Institute of Translational Biomedicine can be found at the web portal of St. Petersburg State University (http://biomedinstitute.spbu.ru/).

Publications

1. Anton Bankevich, Pavel A. Pevzner TruSPAdes: barcode assembly of TruSeq synthetic long reads Nature Methods, Vol. 13, pp. 248–250 (year - 2016) https://doi.org/10.1038/nmeth.3737

2. Baranova T.I., Berlov D.N., Glotov O.S., Korf E.A., Mingalin A.D., Mitrofanova A.V., Ahmetov I.I., Glotov A.S. Genetic determination of the vascular reactions in humans in response to the diving reflex American Journal of Physiology - Heart and Circulatory Physiology, American Journal of Physiology - Heart and Circulatory Physiology (year - 2017)

3. Chernoff Yu.O. Are there prions in plants? Proceedings of the National Academy of Sciences of USA, Vol. 113. № 22. P. 6097-6099. (year - 2016) https://doi.org/10.1073/pnas.1605671113

4. Chizhova, M.; Bakulina, O.; Dar'in, D.; Krasavin, M. New Dicarboxylic Acid Anhydride for Ambient-Temperature Castagnoli-Cushman Reaction. ChemistrySelect, № 1, с. 5487-5492 (year - 2016) https://doi.org/10.1002/slct.201601207

5. Dar'in, D.; Bakulina, O.; Nikolskaya, S.; Gluzdikov, I.; Krasavin, M. The rare cis-configures trisubstitututed lactam products obtained by the Castagnoli-Cushman reaction in N,N-dimethylformamide. RSC Advances, 6, с. 49411-49415 (year - 2016) https://doi.org/10.1039/c6ra10249b

6. Dmitry Antipov, Anton Korobeynikov, Jeffrey S. McLean, Pavel A. Pevzner HybridSPAdes: an algorithm for hybrid assembly of short and long reads Bioinformatics, 32 (7): 1009-1015 (year - 2016) https://doi.org/10.1093/bioinformatics/btv688

7. Dorofeikova M.V., Petrova N.N. Сравнительные характеристики когнитивного статуса больных шизоаффективным расстройством и шизофренией Обозрение психиатрии и медицинской психологии им. В.М. Бехтерева, № 4. С. 56-61. (year - 2015)

8. Drozdova P.B., Tarasov O.V., Matveenko A.G., Radchenko E.A., Sopova J.V., Polev D.E., Inge-Vechtomov S.G., Dobrynin P.V. Genome Sequencing and Comparative Analysis of Saccharomyces cerevisiae Strains of the Peterhof Genetic Collection PLoS One, 11(5):e0154722. doi: 10.1371/journal.pone.0154722. eCollection 2016. (year - 2016) https://doi.org/10.1371/journal.pone.0154722

9. Emily Denise Melton, Dimitry Y. Sorokin, Lex Overmars, Olga Chertkov, Alicia Clum, Manoj Pillay, Natalia Ivanova, Nicole Shapiro, Nikos C. Kyrpides, Tanja Woyke, Alla L. Lapidus, and Gerard Muyzer Complete genome sequence of Desulfurivibrio alkaliphilus strain AHT2T, a haloalkaliphilic sulfidogen from Egyptian hypersaline alkaline lakes Standards in Genomic Sciences, 11(1): 67 (year - 2016) https://doi.org/10.1186/s40793-016-0184-4

10. Grizel A.V., Rubel A.A., Chernoff Yu.O. Strain confirmation controls the specificity of cross-species prion transmission in the yeast model Prion, 10(4). P. 269-282. (year - 2016) https://doi.org/10.1080/19336896.2016.1204060

11. Hosein Mohimani, Alexey Gurevich, Alla Mikheenko, Neha Garg, Louis-Felix Nothias, Akihiro Ninomiya, Kentaro Takada, Pieter C Dorrestein, Pavel A Pevzner Dereplication of Peptidic Natural Products Through Database Search of Mass Spectra Nature Chemical Biology, - (year - 2016) https://doi.org/10.1038/nchembio.2219

12. Hubina A.V., Pogodaev A.A., Sharoyko V.V., Vlakh E.G., Tennikova T.B. Self-assembled spin-labeled nanoparticles based on poly(amino acids) REACTIVE AND FUNCTIONAL POLYMERS, V. 100, P. 173-180 (year - 2016) https://doi.org/10.1016/j.reactfunctpolym.2016.01.018

13. Illiano P, Lanzo A, Leo D, Paglione M, Zampi G, Gainetdinov RR, Di Schiavi E A Caenorhabditis elegans model to study dopamine transporter deficiency syndrome European Journal Of Neuroscience, - (year - 2016) https://doi.org/10.1111/ejn.13366

14. Kalinin, S.; Supuran, C. T.; Krasavin, M. Multicomponent chemistry in the synthesis of carbonic anhydrase inhibitors. Journal of Enzyme Inhibition and Medicinal Chemistry, опубликована онлайн (year - 2016) https://doi.org/10.1080/14756366.2016.1220944

15. Kira Vyatkina, Si Wu, Lennard J. M. Dekker, Martijn M. VanDuijn, Xiaowen Liu, Nikola Tolić, Theo M. Luider, Ljiljana Paša-Tolić, Pavel A. Pevzner Top-down analysis of protein samples by de novo sequencing techniques Bioinformatics, 32 (18): 2753-2759 (year - 2016) https://doi.org/10.1093/bioinformatics/btw307

16. Komissarova S.M., Chakova N.N, Niyazova S.S., Kazakov S.V., Zhukova E.A., Aleksandrov A.V., Glotov O.S., Glotov A.S. Особенности клинических проявлений гипертрофической кардиомиопатии у пациентов с различными мутациями в генах саркомеров / The specifics of hypertrophic cardiomyopathy clinical presentation in patients with various mutations of sarcomere genes Российский кардиологический журнал / Russian Journal of Cardiology, 1 (129). С. 20-25. (year - 2016) https://doi.org/10.15829/1560-4071-2016-1-20-25

17. Korzhikov V. , Averianov I. , Litvinchuk E., Tennikova T.B. Polyester-based microparticles of different hydrophobicity: the patterns of lipophilic drug entrapment and release JOURNAL OF MICROENCAPSULATION, V. 33, I. 3, P. 199-208 (year - 2016) https://doi.org/10.3109/02652048.2016.1144818

18. Korzhikov V.A., Sinitsyna E.S., Sobinina Yu.M., Tennikova T.B. Биофункциональные частицы на основе алифатических сложных полиэфиров – перспективные системы доставки лекарств. Актуальные вопросы биологической физики и химии, Т. 2, С. 206-210 (year - 2016)

19. Korzhikov-Vlakh V., Krylova M., Sinitsyna E., Ivankova E., Averianov I., Tennikova T. Hydrogel layers on the surface of polyester-based materials for improvement of their biointeractions and controlled release of proteins POLYMERS, V. 8, I. 12, P. 418. (year - 2016) https://doi.org/10.3390/polym8120418

20. Krasavin, M.; Lukin, A.; Bagnyukova, D.; Zhurilo, N.; Zahanich, I.; Zozulya, I.; Ihalainen, J.; Forsberg, M. M.; Lehtonen, M.; Rautio, J.; Moore, D.; Tikhonova, I. G. Free fatty acid receptor 1 (GPR40) agonists containing spirocyclic periphery inspired by LY2881835. Bioorganic and Medicinal Chemistry, № 24, с. 5481-5494 (year - 2016) https://doi.org/10.1016/j.bmc.2016.09.004

21. Krasavin, M.; Lukin, A.; Bagnyukova, D.; Zhurilo, N.; Zahanich, I.; Zozulya, S. Novel FFA1 (GPR40) agonists containing spirocyclic periphery: polar azine periphery as a driver of potency. Journal of Enzyme Inhibition and Medicinal Chemistry, опубликована онлайн (year - 2016) https://doi.org/10.1080/14756366.2016.1230110

22. Krasavin, M.; Lukin, A.; Zhurilo, N.; Kovalenko, A.; Zahanich, I.; Zozulya, S. Novel agonists of free fatty acid receptor 1 (GPR40) based on 3-(1,3,4-thiadiazol-2-yl)propanoic acid scaffold. Journal of Enzyme Inhibition and Medicinal Chemistry, № 31, с. 1404-1410 (year - 2016) https://doi.org/10.3109/14756366.2016.1142984

23. Krasavin, M.; Lukin, A.; Zhurilo, N.; Kovalenko, A.; Zahanich, I.; Zozulya, S.; Moore, D.; Tikhonova, I. G. Novel free fatty acid receptor 1 (GPR40) agonists based on 1,3,4-thiadiazole-2-carboxamide scaffold. Bioorganic and Medicinal Chemistry, 24, с. 2954-2963 (year - 2016) https://doi.org/10.1016/j.bmc.2016.04.065

24. Krasavin, M.; Stavniichuk, R.; Zozulya, S.; Borysko, P.; Vullo, D.; Supuran, C. T. Discovery of Strecker-type alpha-aminonitriles as a new class of human carbonic anhydrase inhibitors using differential scanning fluorimetry. Journal of Enzyme Inhibition and Medicinal Chemistry, № 31, с. 1707-1711 (year - 2016) https://doi.org/10.3109/14756366.2016.1156676

25. Kulyashova, A.; Krasavin, M. Convenient modular construction of medicinally important 5-acylamino-4,5-dihydroisoxazoles featuring four elements of diversity. Tetrahedron Letters, № 57, с. 4395-4397 (year - 2016) https://doi.org/10.1016/j.tetlet.2016.08.059

26. Lepikhina, A.; Bakulina, O.; Dar'in, D.; Krasavin, M. The first solvent-free synthesis of privileged gamma- and delta-lactams via the Castagnoli-Cushman reaction. RSC Advances, № 6, с. 83808 - 83813 (year - 2016) https://doi.org/10.1039/C6RA19196G

27. Logunova E.V., Shelepin Yu.E. Study of the role of spatial-frequency filtering of images when evaluating the age and interpreting the emotional expression of faces Journal of Optical Technology, 82(10). P. 694-699 (year - 2015) https://doi.org/10.1364/JOT.82.000694

28. Lukin, A.; Bagnyukova, D.; Kalinchenkova, N.; Zhurilo, N.; Krasavin. M. Spirocyclic Amino Alcohol Building Blocks Prepared via a Prins-Type Cyclization in Aqueous Sulfuric Acid. Tetrahedron Letters, № 57, с. 3311-3314 (year - 2016) https://doi.org/10.1016/j.tetlet.2016.06.054

29. Lukin, A.; Bagnyukova, D.; Zhurilo, N.; Krasavin, M. Gram-scale Synthesis of a Novel Core Building Block for the New GPR40 Agonist Design. Letters in Organic Chemistry, 13, с. 491-495 (year - 2016) https://doi.org/10.2174/1570178613666160805115331

30. Lukin, A.; Vedekhina, T.; Tovpeko, D.; Zhurilo, N.; Krasavin, M. Zn-Catalyzed hydrohydrazination of propargylamides with BocNHNH2: a novel entry into 1,2,4-triazine core. RSC Advances, № 6, с. 57956 - 57959 (year - 2016) https://doi.org/10.1039/c6ra12664b

31. Maia N. Putintseva, Olga Yu. Bakulina, Alexander Yu. Ivanov, Pavel S. Lobanov, Sofia K. Nikolskaya, Ilya E. Kolesnikov, Dmitry V. Dar’in Double tandem cyclization of 4-(1-acyl-2,2-diaminovinyl)-6-arylpyrimidine-5-carbonitriles. Synthesis of novel peri-annulated azines Tetrahedron Letters, № 57, с. 5192-5196 (year - 2016)

32. Matthew J. Bertin, Alexandra Vulpanovici, Emily A. Monroe, Anton Korobeynikov, David H. Sherman, Lena Gerwick, William H. Gerwick The Phormidolide Biosynthetic Gene Cluster: A trans-AT PKS Pathway Encoding a Toxic Macrocyclic Polyketide ChemBioChem, 17(2):164-173 (year - 2016) https://doi.org/10.1002/cbic.201500467

33. Megan E. Fox, Maria A. Mikhailova, Caroline E. Bass, Pavel Takmakov, Raul R. Gainetdinov, Evgeny A. Budygin and R. Mark Wightman. Cross-hemispheric dopamine projections have functional significance Proceedings of the National Academy of Sciences of The United States Of America (PNAS), 113(25):6985-90 (year - 2016) https://doi.org/10.1073/pnas.1603629113

34. Michelle Antoinette Schorn, Mohammad M Alanjary, Kristen Aguinaldo, Anton Korobeynikov, Sheila Podell, Nastassia V Patin, Tommie Lincecum, Paul R Jensen, Nadine Ziemert, Bradley S Moore Sequencing Rare Marine Actinomycete Genomes Reveals High Density of Unique Natural Product Biosynthetic Gene Clusters Microbiology, - (year - 2016) https://doi.org/10.1099/mic.0.000386

35. Mikhailova MA, Bass CE, Grinevich VP, Chappell AM, Deal AL, Bonin KD, Weiner JL, Gainetdinov RR, Budygin EA Optogenetically-induced tonic dopamine release from VTA-nucleus accumbens projections inhibitsreward consummatory behaviors Neuroscience, 333:54-64 (year - 2016) https://doi.org/10.1016/j.neuroscience.2016.07.006

36. Mishchuk, A.; Shtil, N.; Poberezhnyk, M.; Nazarenko, K.; Savchenko, T.; Tolmachev, A.; Krasavin, M. Keeping it small, polar and non-flat: diversely functionalized building blocks containing the privileged 5,6,7,8-tetrahydro[1,2,4]triazolo[4,3-a]- and [1,5-a]pyridine cores. Tetrahedron Letters, № 57, с. 1056-1059 (year - 2016) https://doi.org/10.1016/j.tetlet.2016.01.094

37. Namozova S.Sh., Khubbiev Sh.Z., Shadrin L.V. University sport levels Theory and practice of physical culture, №10. С. 56-58. (year - 2016)

38. Nizhnikov А.А., Ryzhova T.А., Volkov K.V., Zadorsky S.P., Sopova J.V., Inge-Vechtomov S.G., Galkin A.P.* Interaction of prions causes heritable traits in Saccharomyces cerevisiae PLoS Genetics, - (year - 2017)

39. Petrova N.N., Dorofeikova M.V., Voinkova E.E. Cognitive disorders in patients with schizophrenia at different stages of the disease Zhurnal Nevrologii i Psikhiatrii imeni S.S. Korsakova, 116 (4). P. 10-15 (year - 2016) https://doi.org/10.17116/jnevro20161164110-15

40. Sapegin, A.; Panova, V.; Reutskaya, E.; Smirnov, A. V.; Krasavin, M. A novel, flexible strategy to construct privileged dibenzo[b,f][1,4,5]oxathiazepine-5,5-dioxides and their heterocyclic isosteres. Tetrahedron, № 72, с. 7570-7578 (year - 2016) https://doi.org/10.1016/j.tet.2016.10.008

41. Sapegin, A.; Reutskaya, E.; Smirnov, A.; Korsakov, M.; Krasavin, M. Facile entry into structurally diverse, privileged, (hetero)arene-fused N-alkoxy 3,4-dihydrobenzo[f][1,4]oxazepin-5(2H)-ones. Tetrahedron Letters, опубликована онлайн (year - 2016) https://doi.org/10.1016/j.tetlet.2016.11.064

42. Supuran, C.T.; Kalinin, S.; Tanç, M.; Sarnpitak, P.; Mujumdar, P. Poulsen, S.-A.; Krasavin, M. Isoform-selective inhibitory profile of 2-imidazoline-substituted benzenesulfonamides against a panel of human carbonic anhydrases. Journal of Enzyme Inhibition and Medicinal Chemistry, опубликована онлайн (year - 2016) https://doi.org/10.1080/14756366.2016.1178248

43. Susie L. Cummings, Debby Barbé, Tiago Ferreira Leao, Anton Korobeynikov, Niclas Engene, Evgenia Glukhov, William H. Gerwick, Lena Gerwick A novel uncultured heterotrophic bacterial associate of the cyanobacterium Moorea producens JHB BMC Microbiology, 16(1):198 (year - 2016) https://doi.org/10.1186/s12866-016-0817-1

44. Vlakh E., Ananyan A., Zashikhina N., Hubina A., Pogodaev A., Volokitina M., Sharoyko V., Tennikova T. Preparation, Characterization, and Biological Evaluation of Poly(Glutamic Acid)-b-Polyphenylalanine Polymersomes POLYMERS, V. 8, I. 6, P. 212 (year - 2016) https://doi.org/10.3390/polym8060212

45. Vlakh E.G., Zashikhina N.N., Tennikova T.B. Перспективные системы доставки лекарств на основе амфифильных полипептидов. Актуальные вопросы биологической физики и химии, Т. 2, С. 90-94 (year - 2016)

46. Zhuk A.S., Stepchenkova E.I., Pavlov Yu. I., Inge-Vechtomov S.G. Оценка эффективности методов синхронизации клеточных делений у дрожжей Saccharomyces cerevisiae Цитология, T. 58. № 12. C. 936 – 946. (year - 2016)

47. Chernoff Yu.O., Kiktev D.A. Dual role of ribosome-associated chaperones in prion formation and propagation Current Genetics, 62:677-685 (year - 2016) https://doi.org/10.1007/s00294-016-0586-2

48. Eugenia V. Gurevich, Raul R. Gainetdinov, Vsevolod V. Gurevich G protein-coupled receptor kinases as regulators of dopamine receptor functions Pharmacological Research, 111:1-16 (year - 2016) https://doi.org/10.1016/j.phrs.2016.05.010

49. Grigory Kantin, Mikhail Krasavin N-Arylation of Amidines and Guanidines: An Update Current Organic Chemistry, № 20, с. 1370-1388 (year - 2016) https://doi.org/10.2174/1385272820666160205003213

50. Homberg J, Kyzar E, Nguyen M, Norton W, Pittman J, Poudel M, Gaikwad S, Nakamura S, Koshiba M, Yamanouchi H, Scattoni M, Ullman J, Diamond D, Kaluyeva A, Parker M, Klimenko V, Apryatin S, Brown R, Song C, Gainetdinov R, Gottesman I, Kalueff A. Understanding autism and other neurodevelopmental disorders through experimental translationalneurobehavioral models Neuroscience And Biobehavioral Reviews, 65, P. 292-312 (year - 2016) https://doi.org/10.1016/j.neubiorev.2016.03.013

51. I. Guryanov, S. Fiorucci, T. Tennikova, Receptor-ligand interactions: Advanced biomedical applications MATERIALS SCIENCE & ENGINEERING C - MATERIALS FOR BIOLOGICAL APPLICATIONS, V. 68, P. 890-903 (year - 2016) https://doi.org/10.1016/j.msec.2016.07.072

52. Krasavin, M.; Dar'in, D. Current diversity of cyclic anhydrides for the Castagnoli–Cushman type formal cycloaddition reactions: prospects and challenges Tetrahedron Letters, № 57, с. 1635-1640 (year - 2016) https://doi.org/10.1016/j.tetlet.2016.03.021

53. Chernoff Yu.O., Chandramowlishwaran P., Meng Sun Prion nucleation and propagation by amyloid β in the yeast model Prion, 10:sup1, S25-S26. O-06 (year - 2016) https://doi.org/10.1080/19336896.2016.1163103

54. Glotov O.,Glotov A.,Zukova E.,Bashnina E.,Beresneva O.,Turkunova M.,Polyakova I.,Ivashenko T.,Apalko S.Fedyakov M.Shwed N.Shabanova E.Polev D.Dubinina T.Tyrtova L.Polyanskaya M.Lobanova N.Olenev A.Platonov V.Korytko T.Karpushkina A.Baranov V. Exome sequencing in infants with monogenic diabetes mellitus in Russia European Journal of Human Genetics, Vol 24 E-Supplement 1, May 20, 2016. P. 142. (year - 2016)

55. Megan E. Fox, Maria A. Mikhailova, Caroline E. Bass, Pavel Takmakov, Raul R. Gainetdinov, Evgeny A. Budygin and R. Mark Wightman Cross-hemispheric dopamine projections have functional role Society for Neuroscience, Program#/Poster#: 498.10/F39 Topic: B.01. Neurotransmitters and Signaling Molecules (year - 2016)

56. Romanova N.V., Zelinsky A.A., Bondarev S.A., Chadramowlishwaran P., Deckner Z., Kajava A.V., Rubel A.A., Chernoff Yu.O. Yeast-based search for new human amyloidogenic proteins Prion, 10:sup1, S65. P-055 (year - 2016) https://doi.org/10.1080/19336896.2016.1162644

57. Rubel A.A., Grizel A.V., Bondarev S.A., Kachkin D.V., Chernoff Yu.O. Analysis of interspecies prion transmission in yeast Prion, 10:sup1, S65-S66. P-056 (year - 2016) https://doi.org/10.1080/19336896.2016.1162644

58. Sukhanov I., Sotnikova T.D., Gainetdinov R.R. Differences in effects of NMDA receptor antagonists in BARR2-KO mice European Neuropsychopharmacology, Volume 26, Supplement 2, Page S276 (year - 2016) https://doi.org/10.1016/S0924-977X(16)31163-4

59. - «Программа для построения репертуара иммуноглобулинов и Т-клеточных рецепторов на основе данных иммуносеквенирования» (IgRepertoireConstructor) -, Заявка No 2015662708 (year - )

60. - Ученые СПбГУ создали уникальный инструмент для работы с Natural Products Planet-today.ru, Вторник, 01 Ноября 2016 11:48 (year - )

61. - Знай их в лицо: МГУ, СПбГУ и МФТИ как кузницы кадров Учёба.ру, 17 мая 2016 (year - )

62. - Инновации вузов и Образовательный форум Первый канал, 24 ноября, вторник, 12:24, Первый Канал - Санкт-Петербург. (year - )

63. - Право вернуться домой надо заслужить газета «Известия», 13 июля 2016, 09:15, ОАО «Газета Известия» (year - )

64. - Ученые меняют клетки на аквариумы: изучают стресс на рыбках, а не грызунах Доктор Питер, 17:20, 07.06.2016 (year - )

65. - Петербургский Университет распахнул двери тем, кто пришел на Фестиваль знаний «Вечерний Санкт-Петербург», 03/10/2016 (year - )

66. - "Работать в России - плавать без воды": реплики ученых-эмигрантов газета «Московский Комсомолец», 2 июня 2016 в 19:31, ЗАО "Редакция газеты "Московский Комсомолец", Электронное периодическое издание «MK.ru» (year - )

Annotation of the results obtained in 2017
With an account of its key participants' accumulated experience, significant human, intellectual and other resources as well as material assets, the program "Translational Biomedicine at St. Petersburg State University" contributes to notable integration of biomedical and related studies at the venue of the SPbSU Institute of Translational Biomedicine (ITBM). The Strategy for Science and Technology Development in the Russian Federation approved by the Russian Presidential Decree No. 642 "On the Strategy for Science and Technology Development in the Russian Federation" as of December 01, 2016 became a benchmark for the Institute's activities in 2017 and activity planning for the medium term. All the activities of the Institute are aimed at solving problems that lie in the field of the following strategic priority: "transition to personalized medicine, high-tech healthcare and health-saving technologies". ITMB specialists' research as well as various arrangements within the framework of the program may be viewed as important steps taken to accomplish the tasks set, the task of integrating efforts of the leading SPbSU scientists to implement the full cycle of research related to human health study — from collecting and storing biomaterials for subsequent analysis to creation of new pharmaceutical drugs — playing the key role here. In accordance with the program the following main research areas have been developed at the Institute under the guidance of the leading scientists starting from 2015: • medical and population genetics (Chernoff, Yu.O., WOS h-index - 35); • bioinformatics (Pevzner, P.A., WOS h-index - 55); • neuropsychiatric disorders (Gainetdinov, R.R., WOS h-index - 68); • development of drugs (Krasavin, M.Yu., WOS h-index - 17) • methods of drug delivery (Tennikova, T.B., WOS h-index - 25); In 2016, three more laboratories became part of the Institute: the Laboratory of Synapse Biology (Shuplyakov, O.V., WOS h-index - 37); the Laboratory of Biological Psychiatry (Kaluev, A.V., WOS h-index - 41) and the Laboratory of Neuroprosthetics (Musienko, P.E., WOS h-index - 18). In 2017, the developing active cooperation between the program areas contributed to the formation of new laboratories at the ITBM venue, this fully corresponding to one of the provisions of the target scenario of the Strategy for Science and Technology Development. Pursuant to this provision, high scientific achievements require concentration of resources in order to obtain new scientific findings. Three more laboratories have been established: • Laboratory of Cellular and Molecular Biology (Tomilin, A.N., WOS h-index - 14); • Laboratory "NMR Methods in Molecular Biomedicine" (Skrynnikov, N.R., WOS h-index - 27); • Laboratory of Computational Systems Biology (Kanapin, A.A., WOS h-index - 23; Samsonova, A.A., WOS h-index - 11). Thus, ITBM now comprises 11 laboratories; the total number of employees as of December 2017 has increased to 78 people exclusive of academic staff from other departments involved in the research. In addition, it is important to emphasize that the indicator of the effectiveness of the scientific environment created in the field of translational biomedical research is cooperation and joint scientific activities with other SPbSU laboratories funded by mega-grants from Ministry of Education of Russian Federation led by such major scholars as Yehuda Schoenfeld (WOS h-index - 94); Stephen James O'Brien (WOS h-index - 85), Yury Shtyrov (WOS h-index - 33); Elena Grigorenko (WOS h-index - 35) and Arto Urtti (WOS h-index - 52). In 2017, the employees of the Institute's published 71 articles with the total IF of 389.8, including papers in high-impact scientific journals (IF≥10) such as Science, Nature Methods, Nature Biotechnology, Nature Neuroscience, Nature Chemical Biology, Trends in Pharmacological Sciences and other authoritative editions indexed by Web of Science and Scopus. The overall number of the program participants' publications in 2015–2017 makes up 201 articles in SPbSU-affiliated international scientific journals with the total IF of 979.4. Thus, the research of the team of program participants and associated laboratories has reached a stable level equal to the world one. Due to the development of the scientific program of the Russian Science Foundation and related scientific areas, in 2018 St. Petersburg University was for the first time listed in the subject rankings of the 2018 Times Higher Education World University Rankings in the areas of "Life Sciences" (in the 201-250 group), "Clinical, Pre-clinical and Health" (in the 401-500 group) and "Computer Science" (in the 201-250 group). Another ITBM's priority is the formation of a model of international scientific and technical cooperation. ITBM team's inclusion in the scientific cooperation on the international and national levels resulted in the transition from sporadic open lectures delivered by leading scientists to the format of a consolidated cycle of workshops and active participation in the organization and work of annual international conferences. In 2017 the following events were held: 3rd Annual Scientific Workshop of ITBM SPbSU "Current Issues in Translational Biomedicine", International Scientific Conference "Bioinformatics: From Algorithm to Application", round table discussion "Biobanks. Joining Effort to Address the Burning Issues of Law and Standardization" and a school on bioinformatics for physicians within the framework of the 4th Russian Congress with International Participation "Molecular Basis of Clinical Medicine: State-of-the-Art and Perspectives". ITBM also acted as a participant and co-organizer of the 24th Multidisciplinary International Neuroscience and Biological Psychiatry Conference "Stress and Behavior" ISBS Conference, which brought together over 300 participants from 36 countries; In 2017, creation of the required supporting infrastructure for translational research was continued: the ITBM-based Center for Transgenic Technologies was established as the infrastructural foundation for the development and creation of genetically modified animals. The application of the CRISPR/Cas9 technology makes it possible to develop and introduce new lines of genetically modified mice into scientific circulation. The center also provides services for reproduction, genotyping and preservation of these lines. In addition, all the required documents have been prepared and facilities provided for the "Biobank Center" resource center to obtain medical accreditation meeting the epidemiological surveillance standards and licensing requirements. There is a further task to obtain ISO, GLP and CLIA accreditation. Contacts between the Biobank Center and the leading European biobanks such as Biobank Graz, Austria and Estonian Biobank at the University of Tartu have been established. The resource center employees improve their professional skills working with up-to-date biomedical equipment, which includes participation in the international program "Principles of biobanking for clinical, biological and environmental biospecimens and bioresources". In July 2017, at the venues of the "Biobank Center" resource center of the SPbSU Research Park, with active participation of the ITMB Laboratory of Algorithmic Bioinformatics and Laboratory of Genomic and Proteomic Researches, an additional educational program "The Basis of Next Generation Sequencing and Data Interpretation in Clinical Practice" was organized. It is aimed at teaching the theoretical fundamentals and practical skills of using a variety of applications of the new generation sequencing method (NGS), analysis and interpretation of data for clinical analysis in various fields of biology, biotechnology and medicine. In addition, the first in Russia educational program "The Fundamentals of Biobanking: Theory and Practice" was created in cooperation with OOO "Qvadros-Bio", its purpose being to teach the theoretical fundamentals and practical skills in the field of biobanking. In 2017, the ITBM-assisted Resource Educational Center for High Medical Technologies "Center for Medical Accreditations" started working at St. Petersburg State University, one of its key tasks being, along with creating conditions for the operation of the system of continuous medical and pharmaceutical education, provision of clinical base for R&D implementation and application of scientific findings and advanced medical technologies in healthcare practice. This project also makes a significant contribution to the overall improvement of SPbSU's educational activity. In 2017, an online course titled "Introduction to Bioinformatics: Metagenomics" was launched on the Open Education and Stepik platforms, that making this course more accessible and attractive to the Russian audience. Admissions have been announced to the SPbSU master's program 06.04.01 "Bioinformatics". Not being focused on a single area of life sciences, it is the first multi-discipline program in the field of bioinformatics in St. Petersburg and one of the few in Russia. The program is aimed at easing the current shortage of specialists having both the basic knowledge in the field of life sciences and being able to apply the fundamentals of mathematics, statistics, programming and big data analysis methods. In the course of its implementation, the ITMB scientific facilities will be tested for further launch of new educational programs and new academic disciplines for a wide range of students. For more information visit the SPbU website: http://spbu.ru/postupayushchim/programms/magistratura/bioinformatika. Detailed information on the activities of the Institute of Translational Biomedicine is available on the SPbU website: http://biomedinstitute.spbu.ru/.

Publications

1. A.A. Vdovchenko, A.V. Hubina, E.G. Vlakh, T.B. Tennikova Self-assembled polymer particles based on thermoresponsive biodegradable copolymers of amino acids. Mendeleev Communications, V. 27(2), P. 153-154 (year - 2017) https://doi.org/10.1016/j.mencom.2017.03.015

2. Bakulina, O.; Dar'in, D.; Krasavin, M. o-Phenylenediacetic acid anhydride in the Castagnoli-Cushman reaction: extending the product space to epsilon-lactams. Synlett, Volume 28, Issue 10, pp. 1165-1169 (year - 2017) https://doi.org/10.1055/s-0036-1588714

3. Bakulina, O.; Ivanov, A.; Suslonov, V.; Dar'in, D.; Krasavin, M. A Speedy Route to Sterically Encumbered, Benzene-fused Derivatives of Privileged, Naturally Occurring Hexahydropyrrolo[1,2-b]isoquinoline. Beilstein Journal of Organic Chemistry, Volume 13, pp. 1413-1424 (year - 2017) https://doi.org/10.3762/bjoc.13.138

4. Barbitoff Y.A., Bezdvornykh I.V., Polev D.E., Serebryakova E.A., Glotov A.S., Glotov O.S., Predeus A.V. Catching hidden variation: systematic correction of reference minor allele annotation in clinical variant calling. Genetics in Medicine., - (year - 2017) https://doi.org/10.1038/gim.2017.168

5. Barbitoff Y.A., Matveenko A.G., Moskalenko S.E., Zemlyanko O.M., Newnam G.P., Patel A., Chernova T.A., Chernoff Y.O., Zhouravleva G.A. To CURe or not to CURe? Differential effects of the chaperone sorting factor Cur1 on yeast prions are mediated by the chaperone Sis1. Molecular Microbiology., Molecular Microbiology. 2017. V. 10. № 2. P. 242-257. (year - 2017) https://doi.org/10.1111/mmi.13697

6. Bowers RM, NC Kyrpides, R Stepanauskas, AR Rivers, EA Eloe-Fadrosh, SG Tringe, NN Ivanova, A Copeland, A Clum, SP Jungbluth, TJG Ettema, S Tighe, ..., Alla Lapidus, F Meyer, P Yilmaz, DH Parks, JF Banfield, P Hugenholtz, T Woyke Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea Nature Biotechnology, 35, 725-731 (year - 2017) https://doi.org/10.1038/nbt.3893

7. Budygin E.A., Oleson E.B., Lee Y.B., Blume L.C., Bruno M.J., Howlett A.C., Thompson A.C. and Bass C.E. Acute Depletion of D2 Receptors from the Rat Substantia Nigra Alters Dopamine Kinetics in the Dorsal Striatum and Drug Responsivity Frontiers in Behavioral Neuroscience, 2017 Jan 19;10:248. doi: 10.3389/fnbeh.2016.00248. eCollection 2016. (year - 2017) https://doi.org/10.3389/fnbeh.2016.00248

8. Chernova T.A., Kiktev D.A., Romanyuk A.V., Shanks J.R., Laur O., Ali M., Ghosh A., Kim D., Yang Z., Mang M., Chernoff Y.O., Wilkinson K.D. Yeast short-lived actin associated protein forms a metastable prion in response to thermal stress. Cell Reports., Cell Reports. 2017. V. 18. № 3. P. 751-761. (year - 2017) https://doi.org/10.1016/j.celrep.2016.12.082

9. Chernova, T.A., Chernoff, Y.O., Wilkinson, K.D. Prion-based memory of heat stress in yeast. Prion., Prion. 2017. V. 11. № 3. P. 151-161. (year - 2017) https://doi.org/10.1080/19336896.2017.1328342

10. Chizhova, M.; Dar'in, D.; Krasavin, M. Complications in the Castagnoli-Cushman reaction: an unusual course of reaction between cyclic anhydrides and sterically hindered indolenines. Tetrahedron Letters, Volume 58, Issue 35, pp. 3470-3473 (year - 2017) https://doi.org/10.1016/j.tetlet.2017.07.077

11. D.S. Polyakov, O.I. Antimonova, R.G. Sakhabeev, N.A. Grudinina, A.E. Khodova, E.S. Sinitsyna, V.A. Korzhikov-Vlakh, T.B. Tennikova, M.M. Shavlovsky Влияние наночастиц из полимолочной кислоты на иммуногенность связанного с ними белка. Инфекция и иммунитет, Т. 7, № 2, С. 123–129. (year - 2017) https://doi.org/10.15789/2220-7619-2017-2-123-129

12. Dar'in, D.; Krasavin, M. The Chan-Evans-Lam N-Arylation of 2-Imidazolines. Journal of Organic Chemistry, Volume 81, Issue 24, pp. 12514-12519 (year - 2016) https://doi.org/10.1021/acs.joc.6b02404

13. Dorofeikova M., Neznanov N., Petrova N. Cognitive deficit in patients with paranoid schizophrenia: Its clinical and laboratory correlates/ Psychiatry Research., Psychiatry Research. (year - 2017) https://doi.org/10.1016/j.psychres.2017.09.041

14. E.G. Vlakh, E.V. Grachova, D.D. Zhukovsky, A.V. Hubina, A.S. Mikhailova, J.R. Shakirova, V.V. Sharoyko, S.P. Tunik, T.B. Tennikova Self-assemble nanoparticles based on polypeptides containing C-terminal luminescent Pt-cysteine complex. Scientific Reports, V. 7, ID 41991 (year - 2017) https://doi.org/10.1038/srep41991

15. Efimova O.A., Pendina A.A., Tikhonov A.V., Parfenyev S.E., Mekina I.D., Komarova E.M., Mazilina M.A., Daev E.V., ... Krapivin M.I., Glotov O.S., Stepanova I.S., Shlykova S.A., Kogan I.Y., Gzgzyan A.M., Kuznetzova T.V., Baranov V.S. Genome-wide 5-hydroxymethylcytosine patterns in human spermatogenesis are associated with semen quality. Oncotarget., Oncotarget. 2017 Jun 1.V. 8. № 51. P. 88294-88307. (year - 2017) https://doi.org/10.18632/oncotarget.18331.

16. Ferraroni, M.; Luccarini, L.; Masini, E.; Korsakov, M.; Scozzafava, A.; Supuran, C. T.; Krasavin, M. 1,3-Oxazole-based selective picomolar inhibitors of cytosolic human carbonic anhydrase II alleviate ocular hypertension in rabbits: potency is supported by X-ray crystallography of two leads. Bioorganic and Medicinal Chemistry, Volume 25, Issue 17, pp. 4560-4565 (year - 2017) https://doi.org/10.1016/j.bmc.2017.06.054

17. Galkin A.P. Prions and the concept of polyprionic inheritance. Current Genetics., V. 63. № 5. P. 799-802. (year - 2017) https://doi.org/10.1007/s00294-017-0750-3

18. Gurevich A., Mikheenko A., Shlemov A., Korobeynikov A., Mohimani H., Pevzner P. Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra Nature Microbiology, - (year - 2017)

19. I. Guryanov, E.V. Ubyvovk, E. Korzhikova-Vlakh, T. Tennikova, A.T. Rad, M.-P. Nieh, F. Polo, F. Maran. Poly-L-lysine Grafted Au144 Nanoclusters: Birth and Growth of a Healthy Surface-Plasmon-Resonance-like Band. Chemical Science, V. 8(4), P. 3228-3238 (year - 2017) https://doi.org/10.1039/c6sc05187a

20. I. Guryanov, S. Cipriani, S. Fiorucci, N. Zashikhina, V. Korzhikov-Vlakh, E. Popova, E. Korzhikova-Vlakh, B. Biondi, F. Formaggio, T. Tennikova. Nanotraps with biomimetic surface as decoys for chemokines. Nanomedicine: Nanotechnology, Biology and Medicine, V. 13, P. 2575-2585. (year - 2017) https://doi.org/10.1016/j.nano.2017.07.006

21. Kalinin, S.; Kopylov, S.; Tuccinardi, T.; Sapegin, A.; Dar'in, D.; Angeli, A.; Supuran, C. T.; Krasavin, M. Lucky Switcheroo: Dramatic Potency and Selectivity Improvement of Imidazoline Inhibitors of Human Carbonic Anhydrase VII ACS Medicinal Chemistry Letters, Volume 8, Issue 10, pp. 1105-1109 (year - 2017) https://doi.org/10.1021/acsmedchemlett.7b00300

22. Kantin, G.; Chupakhin, E.; Dar'in, D.; Krasavin, M. Efficient cyclodehydration of dicarboxylic acids with oxalyl chloride. Tetrahedron Letters, Volume 58, Issue 32, pp. 3160-3163 (year - 2017) https://doi.org/10.1016/j.tetlet.2017.06.089

23. Kantin, G.; Krasavin, M. Microwave-promoted reaction of N-alk-1-enyl chloroacetamides with sodium azide unexpectedly yields 1H-imidazol-5(4H)-ones Mendeleev Communications, Volume 27, Issue 1, pp. 95-96 (year - 2017) https://doi.org/10.1016/j.mencom.2017.01.031

24. Kantin, G.; Krasavin, M. Reaction of α-tetralone, 1Н-tetrazol-5-amine, and aromatic aldehydes upon microwave irradiation – a convenient method for the synthesis of 5,6,7,12-tetrahydrobenzo[h]tetrazolo[5,1-b]quinazolines Chemistry of Heterocyclic Compounds, Volume 52, Issue 11, pp 918–922 (year - 2016) https://doi.org/10.1007/s10593-017-1985-0

25. Kira Vyatkina, Lennard J. M. Dekker, Si Wu, Martijn M. VanDuijn, Xiaowen Liu, Nikola Tolić, Theo M. Luider, Ljiljana Paša-Tolić De Novo Sequencing of Peptides from High-Resolution Bottom-Up Tandem Mass Spectra using Top-Down Intended Methods Proteomics, - (year - 2017) https://doi.org/10.1002/pmic.201600321

26. Krasavin, M.; Korsakov, M.; Ronzhina, O.; Tuccinardi, T.; Kalinin, S.; Tanç, M.; Supuran, C. T. Primary mono- and bis-sulfonamides obtained via regiospecific sulfochlorination of N-arylpyrazoles: inhibition profile against a panel of human carbonic anhydrases. Journal of Enzyme Inhibition and Medicinal Chemistry, Volume 32, Issue 1, pp. 920-934 (year - 2017) https://doi.org/10.1080/14756366.2017.1344236

27. Krasavin, M.; Korsakov, M.; Zvonaryova, Z.; Semyonychev, E.; Tuccinardi, T.; Kalinin, S.; Tanç, M.; Supuran, C. T. Human carbonic anhydrase inhibitory profile of mono- and bis-sulfonamides synthesized via a direct sulfochlorination of 3-and 4-(hetero)arylisoxazol-5-amine scaffolds. Bioorganic and Medicinal Chemistry, Volume 25, Issue 6, pp. 1914-1925 (year - 2017) https://doi.org/10.1016/j.bmc.2017.02.018

28. Krasavin, M.; Lukin, A.; Bagnyukova, D.; Zhurilo, N.; Golovanov, A.; Zozulya, S.; Zahanich, I.; Moore, D.; Tikhonova, I. G. Polar aromatic periphery increases agonist potency of spirocyclic free fatty acid receptor (GPR40) agonists inspired by LY2881835. European Journal of Medicinal Chemistry, Volume 127, pp. 357-368 (year - 2017) https://doi.org/10.1016/j.ejmech.2017.01.005

29. Krasavin, M.; Lukin, A.; Bakholdina, A.; Zhurilo, N.; Onopchenko, O.; Borysko, P.; Zozulya, S.; Moore, D.; Tikhonova, I. G. Continued SAR Exploration of 1,2,4-Thiadiazole-containing Scaffolds in the Design of Free Fatty Acid Receptor 1 (GPR40) agonists. European Journal of Medicinal Chemistry, Volume 140, pp. 229-238 (year - 2017) https://doi.org/10.1016/j.ejmech.2017.09.019

30. Krasavin, M.; Parchinsky, V.; Kantin, G.; Manicheva, O; Dogonadze, M.; Vinogradova, T.; Karge, B.; Brönstrup, M. New nitrofurans amenable by isocyanide multicomponent chemistry are active against multidrug-resistant and poly-resistant Mycobacterium tuberculosis. Bioorganic and Medicinal Chemistry, Volume 25, Issue 6, pp. 1867-1874 (year - 2017) https://doi.org/10.1016/j.bmc.2017.02.003

31. Krasavin, M.; Shetnev,A.; Sharonova, T.; Baykov, S.; Tuccinardi, T.; Kalinin, S.; Angeli, A.; Supuran, C. T. Heterocyclic Periphery in the Design of Carbonic Anhydrase Inhibitors: 1,2,4-Oxadiazol-5-yl Benzenesulfonamides as Potent and Selective Inhibitors of Cytosolic hCA II and Membrane-Bound hCA IX Isoforms. Bioorganic Chemistry, Volume 76, pp. 88-97 (year - 2018) https://doi.org/10.1016/j.bioorg.2017.10.005

32. Leao T., Castelão G., Korobeynikov A., Monroe E., Podell S., Glukhov E., Allen E, Gerwick W., Gerwick L. Comparative genomics uncovers the prolific and distinctive metabolic potential of the cyanobacterial genus Moorea PNAS, 114, 12, 3198-3203 (year - 2017) https://doi.org/10.1073/pnas.1618556114

33. Lepikhina, A.; Dar'in, D.; Bakulina, O.; Chupakhin, E.; Krasavin, M. Skeletal Diversity in Combinatorial Fashion: A New Format for the Castagnoli-Cushman Reaction. ACS Combinatorial Science, Volume 19, Issue 11, pp. 702–707 (year - 2017) https://doi.org/10.1021/acscombsci.7b00118

34. Liazina L.V.,Bodioul N.N., Vochmianina N.V., Efimova A.G., Serebryakova E.A., Ivashenko T.E., Glotov O.S., Glotov A.S., Kuranova M.L., Vasilishina A.A., Suspitsin E.N., Mikhailov A.V., Sarana A.M., Shcherbak S.G., Baranov V.S. Возможности оказания медицинской помощи в современных условиях на примере семьи с наследственной патологией. Медицинская генетика., Медицинская генетика. 2017. № 10. С. 51-54. (year - 2017)

35. M.V. Volokitina, A.V. Nikitina, T.B. Tennikova, E.G. Korzhikova-Vlakh Immobilized enzyme reactors based on monoliths: effect of pore size and enzyme loading on biocatalytic process. Electrophoresis, V. 38 (22-23). P. 2931-2939. (year - 2017) https://doi.org/10.1002/elps.201700210

36. M.V. Volokitina, V.A. Korzhikov-Vlakh, T.B. Tennikova, E.G. Korzhikova-Vlakh Macroporous monoliths for biodegradation study of polymer particles considered as drug delivery systems. Journal of Pharmaceutical and Biomedical Analysis, V. 145, P. 169-177. (year - 2017) https://doi.org/10.1016/j.jpba.2017.06.031

37. Maggi S., Lassi G., Garcia-Garcia C., Plano A., Espinoza S., Mus L., Tinarelli F., Gainetdinov R.R., Balci F., Nolan P.M., Thierry Nieus T., Tucci V. The after-hours circadian mutant has reduced phenotypic plasticity in behaviors at multiple timescales and in sleep homeostasis Scientific Reports, - (year - 2017)

38. Mikhailin E.S., Ivanova L.A., Pakin V.S., Glotov A.S. Попытка верификации диагноза у несовершеннолетней беременной с подозрением на наследственную мозжечковую атаксию Пьера Мари. Международный журнал прикладных и фундаментальных исследований., Международный журнал прикладных и фундаментальных исследований. 2017. № 10-1. С. 48-51. (year - 2017)

39. Moiseenko G.A., Vahrameeva O.A., Lamminpiya A.M., Pronin S.V., Maltsev D.S., Sukhinin M.V., Vershinina E.A., Кovalskaya А.А., Koskin S.A., Shelepin Y.E. Investigation of dependence between foveola sizes and characteristics of visual perception. Human Physiology., Human Physiology. (English Translation of Fiziologiya Cheloveka). (year - 2018)

40. N.N. Zashikhina, M.V. Volokitina, V.A. Korzhikov-Vlakh, I.I. Tarasenko, A. Lavrentieva, T. Scheper, E. Rhuel, R.V. Orlova, T.B. Tennikova, E.G. Korzhikova-Vlakh Self-assembled polypeptide nanoparticles for intracellular irinotecan delivery. European Journal of Pharmaceutical Sciences, V. 109, P. 1-12. (year - 2017) https://doi.org/10.1016/j.ejps.2017.07.022

41. Nurk S., Meleshko D., Korobeynikov A., Pevzner P. metaSPAdes: a new versatile de novo metagenomics assembler Genome Research, 5, 27, 824-834 (year - 2017) https://doi.org/10.1101/gr.213959.116

42. Okamoto A., Hosoda N., Tanaka A., Newnam G.P., Chernoff Y.O., Hoshino S.I. Proteolysis suppresses spontaneous prion generation in yeast. Journal of Biological Chemistry., Journal of Biological Chemistry. 2017. December 8. 292 (49): 20113-20124. (year - 2017) https://doi.org/10.1074/jbc.M117.811323

43. Pakin V.S. Молекулярно-генетические аспекты гестационного сахарного диабета. Проблемы эндокринологии., Проблемы эндокринологии. 2017. 63(3). С. 204-207. (year - 2017) https://doi.org/10.14341/probl2017633204-207

44. Petrova N.N., Dorofeikov V.V., Voinkova E.E. Динамика биохимических показателей у пациентов с первым психотическим эпизодом. Современная терапия психических расстройств., Современная терапия психических расстройств. 2017. № 3. С. 2-6. (year - 2018)

45. Petrova N.N., Ianchenko M.A. Депрессия и когнитивные нарушения. Неврологический вестник., Неврологический вестник. Журнал им. В.М. Бехтерева. 2017. Т. XLIX. Выпуск 4. С. 21-29. (year - 2017)

46. Polanco MJ, Parodi S, Piol D, Stack C, Chivet M, Contestabile A, Miranda HC, Lievens PM, Espinoza S, Jochum T, Rocchi A, Grunseich C, Gainetdinov RR, Cato AC, Lieberman AP, La Spada AR, Sambataro F, Fischbeck KH, Gozes I, Pennuto M Adenylyl cyclase activating polypeptide reduces phosphorylation and toxicity of the polyglutamine-expanded androgen receptor in spinobulbar muscular atrophy Science Translational Medicine, Vol. 8, Issue 370, pp. 370ra181 (year - 2017) https://doi.org/10.1126/scitranslmed.aaf9526

47. Ryzhova T.A, Sopova J.V., Zadorsky S.P., Siniukova V.A., Sergeeva A.V., Nizhnikov A.A., Shenfeld A.A., Volkov K.V., Galkin A.P. Screening for amyloid proteins in the yeast proteome. Current Genetics., - (year - 2017) https://doi.org/10.1007/s00294-017-0759-7

48. S.Sh. Namozova, Sh.Z. Khubbiev, L.V. Shadrin, N.L. Ilyina Морфофункциональный и психологический профили студентов-спортсменов и задачи спортивной тренировки. Теория и практика физический культуры., Теория и практика физический культуры. № 10. 2017. С. 20-22. (year - 2017)

49. Sandel MW, Aguilar А, Fast К, O’Brien S, Lapidus А, Allison DB, Teterina V, Kirilchik S. Complete mitochondrial genomes of Baikal oilfishes (Perciformes: Cottoidei), earth’s deepest-swimming freshwater fishes Mitochondrial DNA, VOL. 2, NO. 2, 773–775 (year - 2017) https://doi.org/10.1080/23802359.2017.1398603

50. Sapegin, A.; Kalinin, S.; Angeli, A.; Supuran, C. T.; Krasavin, M. Unprotected primary sulfonamide group facilitates ring-forming cascade en route to polycyclic [1,4]oxazepine-based carbonic anhydrase inhibitors Bioorganic Chemistry, Volume 76, 140-146 (year - 2018) https://doi.org/10.1016/j.bioorg.2017.11.014

51. Sapegin, A.; Osipyan, A.; Krasavin, M. Structurally Diverse Arene-Fused Ten-Membered Lactams Accessed via Hydrolytic Imidazoline Ring Expansion. Organic and Biomolecular Chesmitry, Volume 15, Issue 14, pp. 2906-2909 (year - 2017) https://doi.org/10.1039/c7ob00535k

52. Shlemov A., Bankevich S., Bzikadze A., Turchaninova M.A., Safonova Y., Pevzner, P.A. Reconstructing Antibody Repertoires from Error-Prone Immunosequencing Reads Journal of Immunology, 199, 9, 3369-3380 (year - 2017) https://doi.org/10.4049/jimmunol.1700485

53. Susanti D, Johnson EF, Lapidus A, Han J, Reddy TBK, Mukherjee S, Pillay M, Perevalova AA, Ivanova NN, Woyke T, Kyrpides NC, Mukhopadhyay B. Permanent Draft Genome Sequence of Desulfurococcus amylolyticus Strain Z-533T, a Peptide and Starch Degrader Isolated from Thermal Springs in the Kamchatka Peninsula and Kunashir Island, Russia Genome Announcements, 13; 5 (15) (year - 2017) https://doi.org/10.1128/genomeA.00078-17

54. Usmanova, L.; Bakulina, O.; Dar'in, D.; Krasavin, M. Spontaneous formation of tricyclic lactones following the Castagnoli-Cushman reaction. Chemistry of Heterocyclic Compounds, Volume 53, Issue 4, pp. 474-479 (year - 2017) https://doi.org/10.1007/s10593-017-2076-y

55. Zolotareva A.D., Glotov O.S., Aseev M.V., Vashukova E.S., Shcherbak S.G. Изучение полиморфизма генов, вовлеченных в HIF-1A индуцированную гипоксию, у альпинистов. Теория и практика физической культуры., Теория и практика физической культуры. 2017. № 6. С. 51-54. (year - 2017)

56. Berry MD, Gainetdinov RR, Hoener MC, Shahid M. Pharmacology of human trace amine-associated receptors: Therapeutic opportunities and challenges Pharmacology & Therapeutics, Volume 180, December 2017, Pages 161-180 (year - 2017) https://doi.org/10.1016/j.pharmthera.2017.07.002

57. Kyzar EJ, Nichols CD, Raul R. Gainetdinov RR, Nichols DE, Kalueff AV Psychedelic Drugs in Biomedicine Trends in Pharmacological Sciences, Volume 38, Issue 11, p992–1005, (year - 2017) https://doi.org/10.1016/j.tips.2017.08.003

58. Levchenko A., Kanapin A., Samsonova A., Gainetdinov R. Human accelerated regions and other human-specific sequence variations in the context of evolution and their relevance for brain development Genome Biology and Evolution, 2017 Nov 14. doi: 10.1093/gbe/evx240. (year - 2017) https://doi.org/10.1093/gbe/evx240

59. M. Krasavin N-(Hetero)aryl-2-imidazolines: an emerging privileged motif for contemporary drug design Chemistry of Heterocyclic Compounds, Volume 53, Issue 3, pp 240–255 (year - 2017) https://doi.org/10.1007/s10593-017-2047-3

60. Matveenko A.G., Barbitoff Y.A., Jay-Garcia L.M., Chernoff Y.O., Zhouravleva G.A. Differential effects of chaperones on yeast prions: CURrent view. Current Genetics., Current Genetics. 20 September 2017. P. 1-9. (year - 2017) https://doi.org/10.1007/s00294-017-0750-3

61. Dolgorukova A., Dorotenko A., Mus L., Gainetdinov R.R., Sukhanov I. Activation of trace amine-associated receptor 1 reduces schedule-induced polydipsia in rats Animal Behaviour, P.1.h Basic and clinical neuroscience, P.1.h.020, S673 (year - 2017)

62. Dorofeykov V., Dorofeikova M., Petrova N. Serum levels of neuron-specific Enolase, S100B and C-reactive protein in schizophrenia. Clinical Chemistry and Laboratory Medicine., Clinical Chemistry and Laboratory Medicine. 2017, 55, Special Suppl., S. 972. (year - 2017) https://doi.org/10.1515/cclm-2017-5028

63. Petrova N., Dorofeikova M. Cognition in schizophrenia: Selective impairment and factors that influence it. European Psychiatry., European Psychiatry. V. 41. (S). S193-S193. (year - 2017) https://doi.org/10.1016/j.eurpsy.2017.01.2127

64. Shlemov A., Bankevich S., Bzikadze A., Turchaninova M.A., Safonova Y., Pevzner, P.A. Reconstructing antibody repertoires from error-prone immunosequencing datasets Lecture Notes in Computer Science, 10229 LNCS, 396-397 (year - 2017)

65. Sukhanov I., Dorotenko A., Dolgorukova A., Dorofeikova M., Gainetdinov R.R. The trace amine-associated receptor 1 modulates nicotine behavioural effects Animal Behaviour, P.1.h Basic and clinical neuroscience, P.1.h.021, S673 (year - 2017)

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