36 results on '"Oparina, Nina"'
Search Results
2. Survivin promotes a glycolytic switch in CD4+ T cells by suppressing the transcription of PFKFB3 in rheumatoid arthritis
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Erlandsson, Malin C., Andersson, Karin M.E., Oparina, Nina Y., Chandrasekaran, Venkataragavan, Saghy, Tibor, Damdimopoulos, Anastasios, Garcia-Bonete, Maria-Jose, Einbeigi, Zakaria, Silfverswärd, Sofia T., Pekna, Marcela, Katona, Gergely, and Bokarewa, Maria I.
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- 2022
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3. Glioblastoma gene network reconstruction and ontology analysis by online bioinformatics tools
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Gubanova Natalya V., Orlova Nina G., Dergilev Arthur I., Oparina Nina Y., and Orlov Yuriy L.
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drug search ,gene networks ,gene ontology ,glioblastoma ,medical genomics ,Biotechnology ,TP248.13-248.65 - Abstract
Glioblastoma is the most aggressive type of brain tumors resistant to a number of antitumor drugs. The problem of therapy and drug treatment course is complicated by extremely high heterogeneity in the benign cell populations, the random arrangement of tumor cells, and polymorphism of their nuclei. The pathogenesis of gliomas needs to be studied using modern cellular technologies, genome- and transcriptome-wide technologies of high-throughput sequencing, analysis of gene expression on microarrays, and methods of modern bioinformatics to find new therapy targets. Functional annotation of genes related to the disease could be retrieved based on genetic databases and cross-validated by integrating complementary experimental data. Gene network reconstruction for a set of genes (proteins) proved to be effective approach to study mechanisms underlying disease progression. We used online bioinformatics tools for annotation of gene list for glioma, reconstruction of gene network and comparative analysis of gene ontology categories. The available tools and the databases for glioblastoma gene analysis are discussed together with the recent progress in this field.
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- 2021
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4. The Use of Directing Technologies in the System of Additional Education
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Oparina Nina Alexandrovna, Gribkova Galina Ivanovna, Kruglova Marina Gennadievna, Grigorieva Elena Ivanovna, Yushchenko Natalia Sergeevna, and Asatryan Olga Fyodorovna
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Multidisciplinary ,Computer science ,ComputingMilieux_COMPUTERSANDEDUCATION - Abstract
The study deploys various research methods. The theoretical methods include analysis, summarization, comparison, synthesis, and systematization of scientific and educational methodical literature to determine the current state of the problem under study. The empirical methods comprise purposeful observation, conversations, interviewing, questionnaire, and testing. In addition, a pedagogical experiment is conducted to test the experimental methods of using directing technologies in organizing the musical-pedagogical process in additional education institutions. Statistical methods are used in quantitative and qualitative processing of the study results, the objectivity of the results is tested using Pearson’s consistency criterion χ2.The need for the formation of a directing space of musical pedagogy as an important condition for improving the professional mastery of teachers in additional education is substantiated. The major directions for the implementation of directing technologies for the development of specialists’ competencies are revealed. The directing space created in the process of lessons and the demonstration of students’ achievements in performance contributes to students’ musical, aesthetic and spiritual, and moral development, the improvement of their performance skills, and the development of motivation for educational and creative and performance activity.
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- 2021
5. Whole Exome Sequencing of Patients from Multicase Families with Systemic Lupus Erythematosus Identifies Multiple Rare Variants
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Delgado-Vega, Angélica M., Martínez-Bueno, Manuel, Oparina, Nina Y., López Herráez, David, Kristjansdottir, Helga, Steinsson, Kristján, Kozyrev, Sergey V., and Alarcón-Riquelme, Marta E.
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- 2018
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6. Adaptation of Students Depending on the Type of Temperament to Educational Activities in Higher School in the Conditions of Online Learning
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Kashina, Julia V., Gluzman, Iuliya V., Oparina, Nina A., Gribkova, Galina I., Ershova, Olga V., Umerkaeva, Sofiya Sh., Kashina, Julia V., Gluzman, Iuliya V., Oparina, Nina A., Gribkova, Galina I., Ershova, Olga V., and Umerkaeva, Sofiya Sh.
- Abstract
The article examines the influence of the type of temperament on the adaptation of students to educational activities at the university in the context of online learning. The article's main aim is to study the regulatory-adaptive status of students depending on the classical and mixed types of temperament. To do so, we analyze and investigate a number of sources on this issue. For the successful adaptation of students to educational activities in the context of online learning, higher school teachers should determine what properties and characteristics of the nervous system their students have. The authors conclude that the regulatory-adaptive abilities of students to the educational process depend on the type of temperament. They are the highest among phlegmatic/sanguine students and the lowest among melancholic students.
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- 2022
7. Cohesin-Mediated Chromatin Interactions and Autoimmunity
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Chandrasekaran, Venkataragavan, primary, Oparina, Nina, additional, Garcia-Bonete, Maria-Jose, additional, Wasén, Caroline, additional, Erlandsson, Malin C., additional, Malmhäll-Bah, Eric, additional, Andersson, Karin M. E., additional, Jensen, Maja, additional, Silfverswärd, Sofia T., additional, Katona, Gergely, additional, and Bokarewa, Maria I., additional
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- 2022
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8. Motivational spheres of student youth in modern Russian society
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Kolesnikova, Galina I., primary, Barkova, Eleonora Vl., additional, Oparina, Nina A., additional, Vlasova, Victoria N., additional, Potapkina, Ekaterina V., additional, and Panov, Maksim O., additional
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- 2021
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9. Cultural and educational potential of club activities in the 21st century as a pedagogical phenomenon
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Kamenets, Aleksandr Vladlenovich, primary, Urmina, Irina Aleksandrovna, additional, Oparina, Nina Alexandrovna, additional, Gribkova, Galina Ivanovna, additional, and Kosiborod, Olga Lvovna, additional
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- 2021
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10. Editorial: Bioinformatics of Genome Regulation, Volume I
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Orlov, Yuriy L., primary, Tatarinova, Tatiana V., additional, Oparina, Nina Y., additional, Galieva, Elvira R., additional, and Baranova, Ancha V., additional
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- 2021
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11. Altered Expression of Multiple Genes Involved in Retinoic Acid Biosynthesis in Human Colorectal Cancer
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Kropotova, Ekaterina S., Zinovieva, Olga L., Zyryanova, Alisa F., Dybovaya, Vera I., Prasolov, Vladimir S., Beresten, Sergey F., Oparina, Nina Yu., and Mashkova, Tamara D.
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- 2014
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12. Implementing the pedagogical potential of social and cultural activities in the institutional environment
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Vladlenovich Kamenets, Aleksandr, Aleksandrovna Urmina, Irina, Pavlovna Kabkova, Elena, Alexandrovna Oparina, Nina, and Leontyevich Dzhioev, Sergey
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institution, social and cultural activity, population, pedagogical potential, creative activity, club, amateur performance - Abstract
The article is concerned with the further development of social and cultural activities due to their great social demand. The authors of the article associate this task with the influence of social institutions on state cultural organizations providing leisure activities for different groups of the population. They have considered the specifics of such impacts in the Russian society of the transition period. As a result, they have revealed new opportunities in forming programs of social and cultural activities with the use of their creative achievements throughout the history of Russia and foreign countries. In addition, the article traces the most common trends in socio-cultural activities focused on institutional and state issues and determines the most promising forms of such activities. In this process, a significant role is played by socio-cultural clubs and mass theater programs. The article sets new priorities in the further development of amateur activities and performances, which effectively combines mass participation and skillfulness. The study also outlines prospects for a more active state participation in the organization of social and cultural activities.
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- 2021
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13. Prognostic Significance of BIRC5/Survivin in Breast Cancer: Results from Three Independent Cohorts
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Oparina, Nina, primary, Erlandsson, Malin C., additional, Fäldt Beding, Anna, additional, Parris, Toshima, additional, Helou, Khalil, additional, Karlsson, Per, additional, Einbeigi, Zakaria, additional, and Bokarewa, Maria I., additional
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- 2021
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14. IgM antibodies against malondialdehyde and phosphorylcholine in different systemic rheumatic diseases
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Thiagarajan, Divya, Oparina, Nina, Lundström, Susanna, Zubarev, Roman, Sun, Jitong, PRECISESADS, Clinical Consortium, Alarcón-Riquelme, Marta, Frostegård, Johan, Kovács, László, Balog, Attila, Deák, Magdolna, Bocskai, Márta, Dulic, Sonja, Kádár, Gabriella, The PRECISESADS Clinical Consortium, [Thiagarajan,D, Oparina,N, Sun,J, Alarcon-Riquelme,M, Frostegård,J] Unit of Immunology and Chronic Disease, Institute of Environmental Medicine, Karolinska Institutet, Stockholm, Sweden. [Lundström,S, Zubarev,R] Division of Physiological Chemistry I, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden. [Alarcon-Riquelme,M] GENYO, Center for Genomics and Oncological Research: Pfizer/University of Granada/Andalusian Government, Parque tecnolуgico de la salud, Granada, Spain., and PRECISESADS Clinical Consortium Members: Te research leading to these results has received support from the Innovative Medicines Initiative Joint Undertaking under grant agreement n°115565, resources of which are composed of fnancial contribution from the European Union’s Seventh Framework Programme (FP7/2007–2013) and EFPIA companies in kind contribution. Swedish Heart Lung foundation and Swedish Rheumatism Association also contributed to fnancing. Open access funding provided by Karolinska Institute.
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Male ,Proteomics ,lcsh:Medicine ,Malondialdehído ,030204 cardiovascular system & hematology ,Inmunoglobulina M ,Organisms::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Primates::Haplorhini::Catarrhini::Hominidae::Humans [Medical Subject Headings] ,chemistry.chemical_compound ,0302 clinical medicine ,Mixed connective tissue disease ,Rheumatic diseases ,Malondialdehyde ,lcsh:Science ,skin and connective tissue diseases ,Chemicals and Drugs::Organic Chemicals::Aldehydes::Malondialdehyde [Medical Subject Headings] ,Persons::Persons::Age Groups::Adult::Aged [Medical Subject Headings] ,Aged, 80 and over ,Multidisciplinary ,biology ,medicine.diagnostic_test ,Analytical, Diagnostic and Therapeutic Techniques and Equipment::Investigative Techniques::Epidemiologic Methods::Epidemiologic Study Characteristics as Topic::Epidemiologic Studies::Case-Control Studies [Medical Subject Headings] ,Undifferentiated connective tissue disease ,Fosforilcolina ,Enfermedades reumáticas ,Middle Aged ,Diseases::Musculoskeletal Diseases::Rheumatic Diseases [Medical Subject Headings] ,Female ,Antibody ,Persons::Persons::Age Groups::Adult::Young Adult [Medical Subject Headings] ,Chemicals and Drugs::Amino Acids, Peptides, and Proteins::Proteins::Blood Proteins::Serum Globulins::Immunoglobulins::Antibodies::Autoantibodies [Medical Subject Headings] ,Adult ,IgM ,Disciplines and Occupations::Natural Science Disciplines::Biological Science Disciplines::Biochemistry::Proteomics [Medical Subject Headings] ,Phosphorylcholine ,Check Tags::Male [Medical Subject Headings] ,Immunoglobulins ,Artritis reumatoide ,Article ,Flow cytometry ,03 medical and health sciences ,Young Adult ,Rheumatology ,Rheumatic Diseases ,medicine ,Humans ,Chemicals and Drugs::Amino Acids, Peptides, and Proteins::Proteins::Blood Proteins::Serum Globulins::Immunoglobulins::Antibodies::Immunoglobulin Isotypes::Immunoglobulin M [Medical Subject Headings] ,Rheumatoid arthritis ,Persons::Persons::Age Groups::Adult [Medical Subject Headings] ,Aged ,Autoantibodies ,030203 arthritis & rheumatology ,business.industry ,lcsh:R ,Autoantibody ,Case-control study ,Persons::Persons::Age Groups::Adult::Middle Aged [Medical Subject Headings] ,medicine.disease ,Proteómica ,chemistry ,Check Tags::Female [Medical Subject Headings] ,Immunoglobulin M ,Persons::Persons::Age Groups::Adult::Aged::Aged, 80 and over [Medical Subject Headings] ,Chemicals and Drugs::Organic Chemicals::Amines::Quaternary Ammonium Compounds::Trimethyl Ammonium Compounds::Choline::Phosphorylcholine [Medical Subject Headings] ,Case-Control Studies ,Immunology ,biology.protein ,lcsh:Q ,business ,Immunoglobulines - Abstract
IgM antibodies against phosphorylcholine (anti-PC) and malondialdehyde (anti-MDA) may have protective properties in cardiovascular and rheumatic diseases. We here compare these antibodies in systemic rheumatic conditions and study their properties. Anti-PC and anti-MDA was measured using ELISA in patients with SLE (374), RA (354), Mixed connective tissue disease (MCTD, 77), Systemic sclerosis (SSc, 331), Sjögren’s syndrome (SjS, 324), primary antiphospholipid syndrome (PAPs, 65), undifferentiated connective tissue disease (UCTD, 118) and 515 matched healthy controls (HC). Cardiovascular score (CV) was broadly defined based on clinical disease symptoms. Anti-PC and anti-MDA peptide/protein characterization were compared using a proteomics de novo sequencing approach. anti-MDA and anti-PC were extracted from total IgM. The proportion of Treg cells was determined by flow cytometry. The maximal difference between cases and controls was shown for MCTD: significantly lower IgM Anti-PC but not anti-MDA among patients (median 49.3RU/ml vs 70.4 in healthy controls, p(t-test) = 0.0037). IgM low levels were more prevalent in MCTD, SLE, SjS, SSc and UCTD. IgM anti-PC variable region profiles were different from and more homologous than anti-MDA. Anti-PC but not anti-MDA were significantly negatively correlated with CV in the whole patient group. In contrast to IgM anti-PC, anti-MDA did not promote polarization of Tregs. Taken together, Anti-PC is decreased in MCTD and also in SLE, SjS and SSc but not in other studied diseases. Anti-PC may thus differentiate between these. In contrast, anti-MDA did not show these differences between diseases studied. Anti-PC level is negatively correlated with CV in the patient group cohort. In contrast to anti-PC, anti-MDA did not promote Treg polarization. These findings could have both diagnostic and therapeutic implications, one possibility being active or passive immunization with PC in some rheumatic conditions.
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- 2020
15. IgM antibodies against malondialdehyde and phosphorylcholine in different systemic rheumatic diseases.
- Author
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UCL - SSS/IREC/RUMA - Pôle de Pathologies rhumatismales, UCL - (SLuc) Service de rhumatologie, Thiagarajan, Divya, Oparina, Nina, Lundström, Susanna, Zubarev, Roman, Sun, Jitong, PRECISESADS Clinical Consortium, Alarcon-Riquelme, Marta, Frostegård, Johan, Lauwerys, Bernard, Ducreux, Julie, Maudoux, Anne-Lise, UCL - SSS/IREC/RUMA - Pôle de Pathologies rhumatismales, UCL - (SLuc) Service de rhumatologie, Thiagarajan, Divya, Oparina, Nina, Lundström, Susanna, Zubarev, Roman, Sun, Jitong, PRECISESADS Clinical Consortium, Alarcon-Riquelme, Marta, Frostegård, Johan, Lauwerys, Bernard, Ducreux, Julie, and Maudoux, Anne-Lise
- Abstract
IgM antibodies against phosphorylcholine (anti-PC) and malondialdehyde (anti-MDA) may have protective properties in cardiovascular and rheumatic diseases. We here compare these antibodies in systemic rheumatic conditions and study their properties. Anti-PC and anti-MDA was measured using ELISA in patients with SLE (374), RA (354), Mixed connective tissue disease (MCTD, 77), Systemic sclerosis (SSc, 331), Sjögren's syndrome (SjS, 324), primary antiphospholipid syndrome (PAPs, 65), undifferentiated connective tissue disease (UCTD, 118) and 515 matched healthy controls (HC). Cardiovascular score (CV) was broadly defined based on clinical disease symptoms. Anti-PC and anti-MDA peptide/protein characterization were compared using a proteomics de novo sequencing approach. anti-MDA and anti-PC were extracted from total IgM. The proportion of Treg cells was determined by flow cytometry. The maximal difference between cases and controls was shown for MCTD: significantly lower IgM Anti-PC but not anti-MDA among patients (median 49.3RU/ml vs 70.4 in healthy controls, p(t-test) = 0.0037). IgM low levels were more prevalent in MCTD, SLE, SjS, SSc and UCTD. IgM anti-PC variable region profiles were different from and more homologous than anti-MDA. Anti-PC but not anti-MDA were significantly negatively correlated with CV in the whole patient group. In contrast to IgM anti-PC, anti-MDA did not promote polarization of Tregs. Taken together, Anti-PC is decreased in MCTD and also in SLE, SjS and SSc but not in other studied diseases. Anti-PC may thus differentiate between these. In contrast, anti-MDA did not show these differences between diseases studied. Anti-PC level is negatively correlated with CV in the patient group cohort. In contrast to anti-PC, anti-MDA did not promote Treg polarization. These findings could have both diagnostic and therapeutic implications, one possibility being active or passive immunization with PC in some rheumatic conditions.
- Published
- 2020
16. Invariant amino acids essential for decoding function of polypeptide release factor eRF1
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Kolosov, Petr, Frolova, Ludmila, Seit-Nebi, Alim, Dubovaya, Vera, Kononenko, Artem, Oparina, Nina, Justesen, Just, Efimov, Alexandr, and Kisselev, Lev
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- 2005
17. Common and specific amino acid residues in the prokaryotic polypeptide release factors RF1 and RF2: possible functional implications
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Oparina, Nina J., Kalinina, Olga V., Gelfand, Mikhail S., and Kisselev, Lev L.
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- 2005
18. Intergenic, gene terminal, and intragenic CpG islands in the human genome
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Kulakovskiy Ivan V, Ermakova Ekaterina O, Malko Dmitry B, Oparina Nina J, Fridman Marina V, Medvedeva Yulia A, Heinzel Andreas, and Makeev Vsevolod J
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Biotechnology ,TP248.13-248.65 ,Genetics ,QH426-470 - Abstract
Abstract Background Recently, it has been discovered that the human genome contains many transcription start sites for non-coding RNA. Regulatory regions related to transcription of this non-coding RNAs are poorly studied. Some of these regulatory regions may be associated with CpG islands located far from transcription start-sites of any protein coding gene. The human genome contains many such CpG islands; however, until now their properties were not systematically studied. Results We studied CpG islands located in different regions of the human genome using methods of bioinformatics and comparative genomics. We have observed that CpG islands have a preference to overlap with exons, including exons located far from transcription start site, but usually extend well into introns. Synonymous substitution rate of CpG-containing codons becomes substantially reduced in regions where CpG islands overlap with protein-coding exons, even if they are located far downstream from transcription start site. CAGE tag analysis displayed frequent transcription start sites in all CpG islands, including those found far from transcription start sites of protein coding genes. Computational prediction and analysis of published ChIP-chip data revealed that CpG islands contain an increased number of sites recognized by Sp1 protein. CpG islands containing more CAGE tags usually also contain more Sp1 binding sites. This is especially relevant for CpG islands located in 3' gene regions. Various examples of transcription, confirmed by mRNAs or ESTs, but with no evidence of protein coding genes, were found in CAGE-enriched CpG islands located far from transcription start site of any known protein coding gene. Conclusions CpG islands located far from transcription start sites of protein coding genes have transcription initiation activity and display Sp1 binding properties. In exons, overlapping with these islands, the synonymous substitution rate of CpG containing codons is decreased. This suggests that these CpG islands are involved in transcription initiation, possibly of some non-coding RNAs.
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- 2010
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19. Folklorism in the culture of modern holidays and ceremonies
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Kajtandzhyan Maria Georgievna and Oparina Nina Aleksandrovna
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media_common.quotation_subject ,Art ,Classics ,media_common - Published
- 2017
20. Folklore traditions in the family artistic and creative education of children
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Oparina Nina Aleksandrovna and Levina Irina Dmitrievna
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Literature ,Folklore ,business.industry ,media_common.quotation_subject ,Art ,Creative education ,business ,media_common ,Visual arts - Published
- 2017
21. Folklorism in the culture of modern holidays and ceremonies
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Oparina Nina Aleksandrovna and Kajtandzhyan Maria Georgievna
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культура ,традиции ,обряд ,праздник ,досуг ,фольклор ,фольклоризм - Abstract
в статье уделено внимание взаимосвязи традиционной обрядовой и праздничной культуры с современными формами и видами праздников, зрелищ и новым обрядами. Праздник насчитывает многовековую историю, и в этой сокровищнице народом накоплено очень много традиций, форм, жанровых разновидностей, которые успешно используются организаторами культурно-досуговой деятельности в современном обществе. Фольклоризм современных форм досуга, к которым относятся обряды и праздники, изучается серьезно и глубоко многими исследователями.
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- 2017
22. Trans-Ethnic Mapping of BANK1 Identifies Two Independent SLE-Risk Linkage Groups Enriched for Co-Transcriptional Splicing Marks
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Martínez-Bueno, Manuel, primary, Oparina, Nina, additional, Dozmorov, Mikhail, additional, Marion, Miranda, additional, Comeau, Mary, additional, Gilkeson, Gary, additional, Kamen, Diane, additional, Weisman, Michael, additional, Salmon, Jane, additional, McCune, Joseph, additional, Harley, John, additional, Kimberly, Robert, additional, James, Judith, additional, Merrill, Joan, additional, Montgomery, Courtney, additional, Langefeld, Carl, additional, and Alarcón-Riquelme, Marta, additional
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- 2018
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23. Prevalent Function of Genome Loci Associated with Development of Multiple Sclerosis as Revealed by GWAS and eQTL Analysis
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Bykadorov, P. A., Oparina, Nina Yu., Fridman, M. V., Makeev, V. Yu., Bykadorov, P. A., Oparina, Nina Yu., Fridman, M. V., and Makeev, V. Yu.
- Abstract
We studied genome distribution of single-nucleotide polymorphisms (SNP) associated with development of multiple sclerosis and identified genome segments enriched in such polymorphisms. Some SNPs observed in identified segments are also local or distal eQTLs (expression quantitative trait loci) for a number of genes expressed in the blood or the nervous system. We analyzed lists of genes expression of which depends on these eQTLs, separately for the blood and the nervous system, and identified GO functions overrepresented in such gene lists. An antigen processing and presentation via MHC class II appeared to be the main gene functions either in the blood or in the nervous system. We identified a set of SNPs genetically linked with at least three SNPs associated with multiple sclerosis in GWAS, which includes eQTLs for all overrepresented functions. These SNPs and genes are located in a rather short locus on chromosome 14 presumably containing IGHG genes. SNPs from this genome segment affect expression of the HLA-DOB, HLA-DQA1, HLA-DQA2, and HLA-DQB1 genes both in the blood and in the nervous system. The results we obtained made it possible to suggest the mechanisms of multiple sclerosis development.
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- 2017
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24. Фольклоризм в культуре современных праздников и обрядов
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Опарина Нина Александровна, Институт культуры и искусств ГАОУ ВО г. Москвы «Московский городской педагогический университет», Oparina Nina Aleksandrovna, Culture and Arts Institute of SAEI of HE "Moscow City University", Кайтанджян Мария Георгиевна, Kajtandzhyan Maria Georgievna, Опарина Нина Александровна, Институт культуры и искусств ГАОУ ВО г. Москвы «Московский городской педагогический университет», Oparina Nina Aleksandrovna, Culture and Arts Institute of SAEI of HE "Moscow City University", Кайтанджян Мария Георгиевна, and Kajtandzhyan Maria Georgievna
- Abstract
в статье уделено внимание взаимосвязи традиционной обрядовой и праздничной культуры с современными формами и видами праздников, зрелищ и новым обрядами. Праздник насчитывает многовековую историю, и в этой сокровищнице народом накоплено очень много традиций, форм, жанровых разновидностей, которые успешно используются организаторами культурно-досуговой деятельности в современном обществе. Фольклоризм современных форм досуга, к которым относятся обряды и праздники, изучается серьезно и глубоко многими исследователями.
- Published
- 2017
25. Фольклорные традиции в семейном художественно-творческом воспитании детей
- Author
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Опарина Нина Александровна, Институт культуры и искусств ГАОУ ВО г. Москвы «Московский городской педагогический университет», Oparina Nina Aleksandrovna, Culture and Arts Institute of SAEI of HE "Moscow City University", Левина Ирина Дмитриевна, Levina Irina Dmitrievna, Опарина Нина Александровна, Институт культуры и искусств ГАОУ ВО г. Москвы «Московский городской педагогический университет», Oparina Nina Aleksandrovna, Culture and Arts Institute of SAEI of HE "Moscow City University", Левина Ирина Дмитриевна, and Levina Irina Dmitrievna
- Abstract
в статье рассматривается взаимосвязь культурного наследия народа с жизнью современного общества. Особенное внимание уделяется приобщению нового юного поколения к традициям народа, образцам народного творчества, сохранившимся в различных жанрах фольклора, традициях, праздниках и обрядах Воспитание на традициях фольклора современных детей и молодёжи приобретает не только теоретическую, но и практическую ценность.
- Published
- 2017
26. Prediction of amino acid positions specific for functional groups in a protein family based on local sequence similarity
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Karasev, Dmitry A., Veselovsky, Alexander V., Oparina, Nina Yu., Filimonov, Dmitry A., Sobolev, Boris N., Karasev, Dmitry A., Veselovsky, Alexander V., Oparina, Nina Yu., Filimonov, Dmitry A., and Sobolev, Boris N.
- Abstract
The exchange of single amino acid residue in protein can substantially affect the specificity of molecular recognition. Many protein families can be divided into the groups based on specificity to recognized ligands. Prediction of group-discriminating residues within the certain family is extremely necessary for theoretical studies, enzyme engineering, drug design, and so on. The most existing methods use the multiple sequence alignment. They have the limitations in prediction accuracy due to the family sequence divergence and ligand-based grouping. We developed a new method SPrOS (Specificity Projection On Sequence) for estimating the specificity of residues to user-defined groups. SPrOS compares the sequence segments from the test protein and training proteins. Contrary to other segment-comparison approaches extracting the string motifs, SPrOS calculates the scores for single positions by the similarity of their surroundings. The method was evaluated on the simulated sequences and real protein families. The high-prediction accuracy was achieved for simulated sequences, in which SPrOS detected specific positions not predicted with the alignment-based method. For bacterial transcription factors (LacI/GalR) clearly divided into functional groups, the predicted specific residues corresponded to the published experimental data. In a more complicated case of protein kinases classified by inhibitor specificity, the positions predicted with high significance were located in ligand-binding areas. As the ligand specificity is not necessary coincided with phylogeny, evolutionary-coupled mutations could disturb the detection of ligand-specific residues. Excluding proximate homologs of the test protein kinase from the training set, we improved the prediction of the ligand-specific residues.
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- 2016
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27. PXK locus in systemic lupus erythematosus : fine mapping and functional analysis reveals novel susceptibility gene ABHD6
- Author
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Oparina, Nina Y., Delgado-Vega, Angelica M., Martinez-Bueno, Manuel, Magro-Checa, Cesar, Fernandez, Concepcion, Ortega Castro, Rafaela, Pons-Estel, Bernardo A., D'Alfonso, Sandra, Sebastiani, Gian Domenico, Witte, Torsten, Lauwerys, Bernard R., Endreffy, Emoke, Kovacs, Laszlo, Escudero, Alejandro, Lopez-Pedrera, Chary, Vasconcelos, Carlos, da Silva, Berta Martins, Frostegard, Johan, Truedsson, Lennart, Martin, Javier, Raya, Enrique, Ortego-Centeno, Norberto, de los Angeles Aguirre, Maria, de Ramon Garrido, Enrique, Castillo Palma, Maria-Jesus, Alarcon-Riquelme, Marta E., Kozyrev, Sergey V., Oparina, Nina Y., Delgado-Vega, Angelica M., Martinez-Bueno, Manuel, Magro-Checa, Cesar, Fernandez, Concepcion, Ortega Castro, Rafaela, Pons-Estel, Bernardo A., D'Alfonso, Sandra, Sebastiani, Gian Domenico, Witte, Torsten, Lauwerys, Bernard R., Endreffy, Emoke, Kovacs, Laszlo, Escudero, Alejandro, Lopez-Pedrera, Chary, Vasconcelos, Carlos, da Silva, Berta Martins, Frostegard, Johan, Truedsson, Lennart, Martin, Javier, Raya, Enrique, Ortego-Centeno, Norberto, de los Angeles Aguirre, Maria, de Ramon Garrido, Enrique, Castillo Palma, Maria-Jesus, Alarcon-Riquelme, Marta E., and Kozyrev, Sergey V.
- Abstract
Objectives To perform fine mapping of the PXK locus associated with systemic lupus erythematosus (SLE) and study functional effects that lead to susceptibility to the disease. Methods Linkage disequilibrium (LD) mapping was conducted by using 1251 SNPs (single nucleotide polymorphism) covering a 862 kb genomic region on 3p14.3 comprising the PXK locus in 1467 SLE patients and 2377 controls of European origin. Tag SNPs and genotypes imputed with IMPUTE2 were tested for association by using SNPTEST and PLINK. The expression QTLs data included three independent datasets for lymphoblastoid cells of European donors: HapMap3, MuTHER and the cross-platform eQTL catalogue. Correlation analysis of eQTLs was performed using Vassarstats. Alternative splicing for the PXK gene was analysed on mRNA from PBMCs. Results Fine mapping revealed long-range LD (>200 kb) extended over the ABHD6, RPP14, PXK, and PDHB genes on 3p14.3. The highly correlated variants tagged an SLE-associated haplotype that was less frequent in the patients compared with the controls (OR=0.89, p=0.00684). A robust correlation between the association with SLE and enhanced expression of ABHD6 gene was revealed, while neither expression, nor splicing alterations associated with SLE susceptibility were detected for PXK. The SNP allele frequencies as well as eQTL pattern analysed in the CEU and CHB HapMap3 populations indicate that the SLE association and the effect on ABHD6 expression are specific to Europeans. Conclusions These results confirm the genetic association of the locus 3p14.3 with SLE in Europeans and point to the ABHD6 and not PXK, as the major susceptibility gene in the region. We suggest a pathogenic mechanism mediated by the upregulation of ABHD6 in individuals carrying the SLE-risk variants.
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- 2015
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28. PXK locus in systemic lupus erythematosus: fine mapping and functional analysis reveals novel susceptibility gene ABHD6.
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UCL - SSS/IREC/RUMA - Pôle de Pathologies rhumatismales, UCL - (SLuc) Service de rhumatologie, Oparina, Nina Y, Delgado-Vega, Angelica M, Martinez-Bueno, Manuel, Magro-Checa, César, Fernández, Concepción, Castro, Rafaela Ortega, Pons-Estel, Bernardo A, D'Alfonso, Sandra, Sebastiani, Gian Domenico, Witte, Torsten, Lauwerys, Bernard, Endreffy, Emoke, Kovács, László, Escudero, Alejandro, López-Pedrera, Chary, Vasconcelos, Carlos, da Silva, Berta Martins, Frostegård, Johan, Truedsson, Lennart, Martin, Javier, Raya, Enrique, Ortego-Centeno, Norberto, de Los Angeles Aguirre, Maria, de Ramón Garrido, Enrique, Palma, María-Jesús Castillo, Alarcon-Riquelme, Marta E, Kozyrev, Sergey V, UCL - SSS/IREC/RUMA - Pôle de Pathologies rhumatismales, UCL - (SLuc) Service de rhumatologie, Oparina, Nina Y, Delgado-Vega, Angelica M, Martinez-Bueno, Manuel, Magro-Checa, César, Fernández, Concepción, Castro, Rafaela Ortega, Pons-Estel, Bernardo A, D'Alfonso, Sandra, Sebastiani, Gian Domenico, Witte, Torsten, Lauwerys, Bernard, Endreffy, Emoke, Kovács, László, Escudero, Alejandro, López-Pedrera, Chary, Vasconcelos, Carlos, da Silva, Berta Martins, Frostegård, Johan, Truedsson, Lennart, Martin, Javier, Raya, Enrique, Ortego-Centeno, Norberto, de Los Angeles Aguirre, Maria, de Ramón Garrido, Enrique, Palma, María-Jesús Castillo, Alarcon-Riquelme, Marta E, and Kozyrev, Sergey V
- Abstract
To perform fine mapping of the PXK locus associated with systemic lupus erythematosus (SLE) and study functional effects that lead to susceptibility to the disease.
- Published
- 2014
29. Non-random DNA fragmentation in next-generation sequencing
- Author
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Poptsova, Maria S., primary, Il'icheva, Irina A., additional, Nechipurenko, Dmitry Yu., additional, Panchenko, Larisa A., additional, Khodikov, Mingian V., additional, Oparina, Nina Y., additional, Polozov, Robert V., additional, Nechipurenko, Yury D., additional, and Grokhovsky, Sergei L., additional
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- 2014
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30. Mutation in ribosomal protein S5 leads to spectinomycin resistance in Neisseria gonorrhoeae
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Ilina, Elena N., primary, Malakhova, Maya V., additional, Bodoev, Ivan N., additional, Oparina, Nina Y., additional, Filimonova, Alla V., additional, and Govorun, Vadim M., additional
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- 2013
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31. Molecular Surveillance of Clinical Neisseria gonorrhoeae Isolates in Russia
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Ilina, Elena N., primary, Oparina, Nina Y., additional, Shitikov, Egor A., additional, Borovskaya, Alexandra D., additional, and Govorun, Vadim M., additional
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- 2010
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32. Intergenic, gene terminal, and intragenic CpG islands in the human genome
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Medvedeva, Yulia A, primary, Fridman, Marina V, additional, Oparina, Nina J, additional, Malko, Dmitry B, additional, Ermakova, Ekaterina O, additional, Kulakovskiy, Ivan V, additional, Heinzel, Andreas, additional, and Makeev, Vsevolod J, additional
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- 2010
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33. Mutations in the highly conserved GGQ motif of class 1 polypeptide release factors abolish ability of human eRF1 to trigger peptidyl-tRNA hydrolysis
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FROLOVA, LUDMILA YU., primary, TSIVKOVSKII, RUSLAN YU., additional, SIVOLOBOVA, GALINA F., additional, OPARINA, NINA YU., additional, SERPINSKY, OLEG I., additional, BLINOV, VLADIMIR M., additional, TATKOV, SERGEY I., additional, and KISSELEV, LEV L., additional
- Published
- 1999
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34. Unequal cross‐over is involved in human alpha satellite DNA rearrangements on a border of the satellite domain
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Mashkova, Tamara, primary, Oparina, Nina, additional, Alexandrov, Ivan, additional, Zinovieva, Olga, additional, Marusina, Alina, additional, Yurov, Yuri, additional, Lacroix, Marie-Helene, additional, and Kisselev, Lev, additional
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- 1998
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35. Molecular Surveillance of Clinical Neisseria gonorrhoeaeIsolates in Russia
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Ilina, Elena N., Oparina, Nina Y., Shitikov, Egor A., Borovskaya, Alexandra D., and Govorun, Vadim M.
- Abstract
ABSTRACTThe choice of adequate methods for epidemiological purposes remains a challenging problem in Neisseria gonorrhoeaemolecular monitoring. In this study, the collection of geographically unrelated gonococci (n= 103) isolated in Russian clinics was comparably tested by (i) a traditional serotyping scheme, (ii) portyping, (iii) Neisseria gonorrhoeaemultiantigen sequence typing (NG-MAST), and (iv) multilocus sequence typing (MLST). It is shown that, according to sequencing data, a third of the strains carried new porB1alleles, as well as tbpBones, and more than half of the samples had new sequence types (STs) as determined by NG-MAST or MLST. The discriminatory power for each typing method was calculated by using the Hunter-Gaston discriminatory index, D. Commonly, modern nucleic acid-based typing methods (portyping, NG-MAST, and MLST) appeared to be more efficient than the classical serotyping scheme. While the traditional serotyping gave a Dvalue of 0.82, the portyping, NG-MAST, and MLST approaches yielded Dvalues of 0.97, 0.98, and 0.91, respectively. Each typing technique revealed the distribution of gonococci slightly correlated with their geographical sources. However, only the MLST method STs were highly associated with certain phenotypes. Although ST1594, ST1892, and ST6720 were typical for susceptible gonococci, ST1901 and ST6716 were undoubtedly associated with a multidrug-resistant phenotype. We conclude that every tested nucleic acid-based typing method is suitable for N. gonorrhoeaemolecular surveillance. However, the MLST method seems to serve large-scale epidemiological purposes, whereas the NG-MAST and portyping approaches are more appropriate for the investigation of local outbreaks.
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- 2010
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36. IgM antibodies against malondialdehyde and phosphorylcholine in different systemic rheumatic diseases.
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Thiagarajan D, Oparina N, Lundström S, Zubarev R, Sun J, Alarcon-Riquelme M, and Frostegård J
- Subjects
- Adult, Aged, Aged, 80 and over, Autoantibodies, Case-Control Studies, Female, Humans, Male, Middle Aged, Young Adult, Immunoglobulin M metabolism, Malondialdehyde immunology, Phosphorylcholine immunology, Proteomics methods, Rheumatic Diseases immunology
- Abstract
IgM antibodies against phosphorylcholine (anti-PC) and malondialdehyde (anti-MDA) may have protective properties in cardiovascular and rheumatic diseases. We here compare these antibodies in systemic rheumatic conditions and study their properties. Anti-PC and anti-MDA was measured using ELISA in patients with SLE (374), RA (354), Mixed connective tissue disease (MCTD, 77), Systemic sclerosis (SSc, 331), Sjögren's syndrome (SjS, 324), primary antiphospholipid syndrome (PAPs, 65), undifferentiated connective tissue disease (UCTD, 118) and 515 matched healthy controls (HC). Cardiovascular score (CV) was broadly defined based on clinical disease symptoms. Anti-PC and anti-MDA peptide/protein characterization were compared using a proteomics de novo sequencing approach. anti-MDA and anti-PC were extracted from total IgM. The proportion of Treg cells was determined by flow cytometry. The maximal difference between cases and controls was shown for MCTD: significantly lower IgM Anti-PC but not anti-MDA among patients (median 49.3RU/ml vs 70.4 in healthy controls, p(t-test) = 0.0037). IgM low levels were more prevalent in MCTD, SLE, SjS, SSc and UCTD. IgM anti-PC variable region profiles were different from and more homologous than anti-MDA. Anti-PC but not anti-MDA were significantly negatively correlated with CV in the whole patient group. In contrast to IgM anti-PC, anti-MDA did not promote polarization of Tregs. Taken together, Anti-PC is decreased in MCTD and also in SLE, SjS and SSc but not in other studied diseases. Anti-PC may thus differentiate between these. In contrast, anti-MDA did not show these differences between diseases studied. Anti-PC level is negatively correlated with CV in the patient group cohort. In contrast to anti-PC, anti-MDA did not promote Treg polarization. These findings could have both diagnostic and therapeutic implications, one possibility being active or passive immunization with PC in some rheumatic conditions.
- Published
- 2020
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