We are the faculty about life and for life.
The Faculty of Biology and Biotechnology was founded in October 2018 with the support of the Russian Academy of Sciences. The aim of the Faculty is to train highly qualified specialists in the field of biology and molecular biotechnology as a response for the demand in the field of science (research centers, academic institutes, technology parks) and various sectors of the economy (pharmaceutical, medical, biotechnology industry, chemical industry, commercial structures operating in the field of biological sciences, etc.).
About the Faculty
Programmes
Departments
The laboratory is developing a new method of personalized drug therapy for cancer patients, which includes establishment of a three-dimensional culture of tumor organoids, followed by a personalized test of chemotherapeutic and targeted drugs to determine the most effective therapy for each individual patient.
Established in 2020, the Laboratory of Molecular Physiology studies the role of microRNA isoforms in the pathogenesis of intestinal diseases and develops new therapeutic approaches to intestinal condition treatment using microRNA isoforms. We collaborate with the National Medical Research Radiological Center, the Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences, and University Medical Center Hamburg-Eppendorf.
The aim of the department is to use the scientific and teaching potential of the leading IBCh researchers to organize a world-class scientific and educational center at the Faculty of Biology and Biotechnology.
Publications
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Book
Agribusiness, Environmental Engineering and Biotechnologies (AGRITECH-IV -2020)
The relevance of studying the regulation of protein-ligand interactions is due to the emergence of new views on the role of metabolites and their key importance in vital processes. To study the protein-ligand interaction, the AB0 antigen-antibody blood system and the enzyme-substrate system of dehydrogenases were used as a test system, and ethanol was used as an influencing factor. In experiments performed with A and B blood erythrocyte antigens, natural AB0 system antibodies and monoclonal antibodies under the influence of ethanol performed change of the degree of agglutination and the time to onset of erythrocyte agglutination. It was found that ethanol can regulate the enzyme-substrate interactions of dehydrogenases: lactate dehydrogenase (EC 1.1.1.27), glyceraldehyde phosphate dehydrogenase (EC 1.1.1.12), and α-glycerol phosphate dehydrogenase (EC 1.1.1.8). The increase in the activity of studied enzymes under the influence of ethanol in the whole blood hemolysate was 2.5 - 3 times higher than in the isolated medium (with pure enzyme preparations).
Vol. 677. IOP Conference Series, 2021.
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Article
ExhauFS: exhaustive search-based feature selection for classification and survival regression
Feature selection is one of the main techniques used to prevent overfitting in machine learning applications. The most straightforward approach for feature selection is an exhaustive search: one can go over all possible feature combinations and pick up the model with the highest accuracy. This method together with its optimizations were actively used in biomedical research, however, publicly available implementation is missing. We present ExhauFS—the user-friendly command-line implementation of the exhaustive search approach for classification and survival regression. Aside from tool description, we included three application examples in the manuscript to comprehensively review the implemented functionality. First, we executed ExhauFS on a toy cervical cancer dataset to illustrate basic concepts. Then, multi-cohort microarray breast cancer datasets were used to construct gene signatures for 5-year recurrence classification. The vast majority of signatures constructed by ExhauFS passed 0.65 threshold of sensitivity and specificity on all datasets, including the validation one. Moreover, a number of gene signatures demonstrated reliable performance on independent RNA-seq dataset without any coefficient re-tuning, i.e., turned out to be cross-platform. Finally, Cox survival regression models were used to fit isomiR signatures for overall survival prediction for patients with colorectal cancer. Similarly to the previous example, the major part of models passed the pre-defined concordance index threshold 0.65 on all datasets. In both real-world scenarios (breast and colorectal cancer datasets), ExhauFS was benchmarked against state-of-the-art feature selection models, including L1-regularized sparse models. In case of breast cancer, we were unable to construct reliable cross-platform classifiers using alternative feature selection approaches. In case of colorectal cancer not a single model passed the same 0.65 threshold. Source codes and documentation of ExhauFS are available on GitHub: https://github.com/s-a-nersisyan/ExhauFS.
PeerJ. 2022.
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Book chapter
The effect of ethanol on protein-ligand interactions
The relevance of studying the regulation of protein-ligand interactions is due to the emergence of new views on the role of metabolites and their key importance in vital processes. To study the protein-ligand interaction, the AB0 antigen-antibody blood system and the enzyme-substrate system of dehydrogenases were used as a test system, and ethanol was used as an influencing factor. In experiments performed with A and B blood erythrocyte antigens, natural AB0 system antibodies and monoclonal antibodies under the influence of ethanol performed change of the degree of agglutination and the time to onset of erythrocyte agglutination. It was found that ethanol can regulate the enzyme-substrate interactions of dehydrogenases: lactate dehydrogenase (EC 1.1.1.27), glyceraldehyde phosphate dehydrogenase (EC 1.1.1.12), and α-glycerol phosphate dehydrogenase (EC 1.1.1.8). The increase in the activity of studied enzymes under the influence of ethanol in the whole blood hemolysate was 2.5 - 3 times higher than in the isolated medium (with pure enzyme preparations).
In bk.: Agribusiness, Environmental Engineering and Biotechnologies (AGRITECH-IV -2020). Vol. 677. IOP Conference Series, 2021.
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Working paper
Type of Physical Activity, Diet, BMI and Tobacco/Alcohol Consumption Relationship: How They are Associated with Our Health
The purpose of this article was to check the effects on health of various types of physical activities, diet, BMI, smoking and alcohol consumption and their interrelationships with control for age, sex and level of education. The study was based on epidemiological data (9617 participants from 19 to 81 years old for whom we have health indicators over a period of 11 years) together with questionnaires about diet, alcohol, tobacco and the frequency of different types of physical activities. Descriptive statistics and non-parametric correlational analysis of epidemiological data was performed with use of SPSS v.19. Our results indicate the existence of the significant relationship between leading a healthy life style (type of physical activities, limitations of fats consume and weight maintenance). However, the different categories of physical activities were analysed separately and showed slight differences on health indicators impacts. Our findings confirm that leading a healthy life style (all types of physical activities, limitations of fats consume and weight maintenance) is an important issue since it has a significant relationship with physical and mental health indicators, but outdoor physical activities and practicing sport in group have shown slightly higher impact on health.MDPI Preprints. 2021030766. MDPI, 2021. No. 2021030766.