Труды сотрудников ИВМ СО РАН

/ A.N. Gorban, T.G. Popova, M.G. Sadovsky // Open Systems and Information Dynamics. - 2000. - Vol. 7, Is. 1. - P1-17 . - ISSN 1230-1612
Аннотация: The classifications of bacterial 16S RNA sequences developed over the real and transformed frequency dictionaries have been studied. Two sequences are considered to be close, when their frequency dictionaries are close in Euclidean metrics. A procedure to transform a dictionary is proposed that makes clear some features of the information pattern of a symbol sequence. A comparative study of classifications developed over real frequency dictionaries vs. the transformed ones has been carried out. A correlation between information patterns of nucleotide sequences and taxonomy of the bearer of the sequence was found. The sites with high information value are found to be the main factors of the difference between the classes in a classification. The classification of nucleotide sequences developed over real frequency dictionaries of thickness 3 reveals the best correlation to a gender of bacteria. A set of sequences of the same gender is included entirely into one class, as a rule, and exclusions occur rarely. A hierarchical classification yields one or two taxonomy groups on each level of classification. An unexpectedly often, or unexpectedly rare occurrence of some sites within a sequence makes a basic difference between the structure patterns of the classes yielded; a number of those sites is not to large. Further investigations are necessary in order to campare the sites revealed with those determined due to other methodology.

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Доп.точки доступа:
Gorban, A.N.; Горбань, Александр Николаевич; Popova, T.G.; Попова Т.Г.; Sadovsky, M.G.; Садовский, Михаил Георгиевич

[Текст] : статья / M. G. Sadovsky // Journal of Siberian Federal University. Mathematics & Physics = Журнал Сибирского федерального университета. Математика и физика. - 2012. - Т. 5, № 1. - С. 3-17
Аннотация: A simple model of targeted migration is studied. The model implies the global information access of the beings migrating from station to station. This approximation yields a special class of models which generater a semi-group. Various dynamic regimes, as well as the stability conditions are studied. Some further expansions of the modelling based on evolution optimality principle are considered.

Полный текст

Держатели документа:
ИВМ СО РАН : 660036, Красноярск, Академгородок, 50, стр.44

Доп.точки доступа:
Садовский, Михаил Георгиевич

[] / M. G. Sadovsky, I. Borovikov // J. Sib. Fed. Univ. Math. Phys. - 2014. - Vol. 7, Is. 1. - P112-123 . - ISSN 1997-1397
Аннотация: The paper presents a novel approach to statistical analysis of financial time series. The approach is based on n-grams frequency dictionaries derived from the quantized market data. Such dictionaries are studied by evaluating their information capacity using relative entropy. A specific quantization of (originally continuous) financial data is considered: so called binary quantization. Possible applications of the proposed technique include market event study with the n-grams of higher information value. The finite length of the input data presents certain computational and theoretical challenges discussed in the paper. also, some other versions of a quantization are discussed. © Siberian Federal University. All rights reserved.

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РИНЦ

Держатели документа:
Institute of computational modelling SB RAS, Akademgorodok, Krasnoyarsk, 660036, Russian Federation
Nekkar.Net Labs, Ltd, CA, United States

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Borovikov, I.

[Текст] / A. N. GORBAN [и др.] // Genetika. - 1993. - Vol. 29, Is. 9. - С. 1413-1419. - Cited References: 20 . - ISSN 0016-6758РУБ Genetics & Heredity

Аннотация: This paper is devoted to the comparative stude of redundancy of genetic texts of various organisms and viruses. To determine the tedundance of a gene, we have introduced the strict measure for that latter. The measure for a text's redundance is the length of restriction of Frequence/Correlation Dictionary of a given genetic text. Frequence/Correlation Dictionary is the ser of all subsequences belang to a given genetic text, accompanied by the frequencies of their occurrence. The restriction length is defined as that one, for which all the subsequences (of that length) are unique. We have found, that genes of human viruses are less redundant, in comparison to those of human genes. Other aspects of a comparative redundance invastigations of the genes are discussed. The problem of the determination of <> intron could be treated by this methodology, as well, as the evolution of genome.

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Держатели документа:
RUSSIAN ACAD SCI,CTR COMP,KRASNOYARSK,RUSSIA
ИВМ СО РАН
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Krasnoyarsk, Russian Federation

Доп.точки доступа:
GORBAN, A.N.; Горбань, Александр Николаевич; MIRKES, E.M.; POPOVA, T.G.; SADOVSKY, M.G.; Садовский, Михаил Георгиевич

[Текст] / A. N. GORBAN [и др.] // Biofizika. - 1993. - Vol. 38, Is. 5. - С. 762-767. - Cited References: 13 . - ISSN 0006-3029РУБ Biophysics

Аннотация: An approach to the study of the properties of genetic texts is proposed. It is based on the investigation of the frequencies of all possible words (subsequences) in a text. The most important effect is that the original text could be reconstructed completly without deletions and/or mistakes using the set of words which are met in the text as a single copy. The length of words for which the effect occurs is a measure of the text redundancy. Some real genetic sequences were studied as well.

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Держатели документа:
RUSSIAN ACAD SCI,CTR COMP,KRASNOYARSK,RUSSIA
ИВМ СО РАН

Доп.точки доступа:
GORBAN, A.N.; Горбань, Александр Николаевич; MIRKES, E.M.; POPOVA, T.G.; SADOVSKY, M.G.; Садовский, Михаил Георгиевич

/ N. N. Bugaenko, A. N. Gorban, M. G. Sadovsky // Open Systems and Information Dynamics. - 1998. - Vol. 5, Is. 3. - P265-278 . - ISSN 1230-1612
Аннотация: The information capacity in frequency dictionaries of nucleotide sequences is estimated through the efficiency of reconstruction of a longer frequency dictionary from a short one. This reconstruction is performed by the maximum entropy method. Real nucleotide sequences are compared to random ones (with the same composition of nucleotides). Phages genes from NCBI bank were analyzed. The reliable difference of real genetic texts from random sequences is observed for the dictionary length q = 2, 5 and 6.

Scopus

Держатели документа:
Computing Center, Siberian Division, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russian Federation
Institute of Biophysics, Siberian Division, Russian Academy of Sciences, Akademgorodok, Krasnoyarsk, 660036, Russian Federation
ИВМ СО РАН
ИБФ СО РАН

Доп.точки доступа:
Bugaenko, N.N.; Gorban, A.N.; Горбань, Александр Николаевич; Sadovsky, M.G.; Садовский, Михаил Георгиевич

[Текст] / E. M. Mirkes, M. G. Sadovsky // Proc. IWBBIO-2013. - 2013. - С. 89-97

Полный текст на сайте конференции


Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич

[Текст] : статья / M. G. Sadovsky, M. Yu. Senashova // Journal of Siberian Federal University. Mathematics & Physics = Журнал Сибирского федерального университета. Математика и физика. - 2013. - Т. 6, № 1. - С. 105-113
   Перевод заглавия: Локальная информированность может приводить к хаотической миграции
Аннотация: A novel model of the targeted migration of a population separated into two subpopulations is proposed. The model is implemented for the local information access. Migration is not random and yields the maximization of a net reproduction, in general; specific version of this general rule is proposed. The local information access means the total lack of knowledge on the environmental conditions and transfer cost at the immigration station, for beings occupying the given station. Various regimes for the models are studied. A reciprocal chaotic-like migrations may take place, for some reasonable parameters figures.

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Держатели документа:
ИВМ СО РАН : 660036, Красноярск, Академгородок, 50, стр.44

Доп.точки доступа:
Senashova, M.Yu.; Сенашова, Мария Юрьевна; Садовский, Михаил Георгиевич

[Текст] : статья / M. G. Sadovsky, M. Zakharov // Journal of Siberian Federal University. Mathematics & Physics = Журнал Сибирского федерального университета. Математика и физика. - 2013. - Т. 6, № 3. - С. 381-405
   Перевод заглавия: Модель терморегуляции у животных, основанная на принципе производства энтропии
Аннотация: A novel model of thermal regulation of homoeothermic animals is implemented.

Полный текст на сайте журнала

Держатели документа:
ИВМ СО РАН : 660036, Красноярск, Академгородок, 50, стр.44

Доп.точки доступа:
Zakharov, M.; Садовский, Михаил Георгиевич

/ M. Sadovsky, X. Nikitina // (15 April 2015 through 17 April 2015. - 2015. - Vol. 9044. - P248-255 . -
Аннотация: The distribution of triplets alongside a genome is studied.We explored the distribution to the nearest neighbour, that is the pattern where two triplets are fixed, and the distance is determined from the former to the latter so that the second triplet takes place nowhere inside the observed gap surrounded with the couple of the given triplets. The distribution differs strongly, for different organisms. Yeast and bacteria seem to have rather smooth pattern, while mammalia and other higher eukaryotes exhibit very complex patterns with long-range correlations in the triplet distribution. © Springer International Publishing Switzerland 2015.

Scopus

Держатели документа:
Institute of computational modelling of SB RASAkademgorodok, Krasnoyarsk, Russian Federation
ИВМ СО РАН

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Nikitina, X.

/ M. G. Sadovsky, M. Y. Senashova // J. Sib. Fed. Univ. Math. Phys. - 2015. - Vol. 8, Is. 3. - P340-342, DOI 10.17516/1997-1397-2015-8-3-340-342 . - ISSN 1997-1397
Аннотация: Comparison of reflexive vs. non-reflexive behaviour is provided, for the dynamics of globally informed beings in a community with optimal migration. © Siberian Federal University. All rights reserved.

Scopus

Держатели документа:
Institute of Computational Modeling SB RAS, Akademgorodok, 50/44, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Senashova, M.Yu.; Сенашова, Мария Юрьевна

/ M. Sadovsky [et al.] // Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). - 2015. - Vol. 9043: 3rd International Work Conference on Bioinformatics and Biomedical Engineering, IWBBIO 2015; Granada; Spain; 15 April 2015 through 17 April 2015; Code 125929. - P481-490 . -
Аннотация: We studied the relations between the triplet frequency dictionaries of organelle genome, and the phylogeny of their bearers. The clusters in 63-dimensional space were identified through K-means, and the clade composition of those clusters has been investigated. Very high regularity in genomes distribution among the clusters was found, in terms of taxonomy. The strong synchrony in evolution of nuclear and organelle genomes manifests through this correlation: the proximity in frequency space was determined over the organelle genomes, while the proximity in taxonomy was determined morphologically. Similar effect is also found in the ensembles of other (say, yeast) genomes. © Springer International Publishing Switzerland 2015.

Scopus

Держатели документа:
Institute of Computational Modelling of SB RAS, Akademgorodok, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Putintseva, Y.; Chernyshova, A.; Fedotova, V.

[Текст] : научное издание / М. С. Иванова, М. Г. Садовский // Фундаментальные исследования. - 2015. - № 9-1. - С. 142-146 . - ISSN 1812-7339
   Перевод заглавия: THE INFLUENCE OF THE FEMALE IMAGE IN ADVERTISING WOMEN’S PERFUME ON SOME ASPECTS OF CONSUMER BEHAVIOR
Аннотация: Представлены результаты предварительного анализа восприятия сексуальной рекламы женской потребительской аудиторией г. Красноярска на примере печатной рекламы женской парфюмерии. Анализ воздействия эротики в рекламе женской парфюмерии на целевую аудиторию проводился путем опроса и анкетирования респондентов в ответ на предъявление им стимульного материала, разработанного на основе отобранных из массива фотоизображений визуальных образов, представленных в рекламе женской парфюмерии. Стимульный материал представлял собой 20 изображений рекламы женской парфюмерии, выделенных из массива в 1000 фотоизображений путем опроса целевой аудитории. Проведённые исследования и вся совокупность полученных результатов показывает, что уверенно говорить о том, что сексуальная реклама будет иметь абсолютно положительный отклик у потенциального потребителя, нельзя. Использование образа с завуалированной сексуальностью в рекламе товаров, направленной на женскую аудиторию является более выигрышным.
Preliminary results of the perception of women sexy advertising by consumer audience of Krasnoyarsk are presented. We used print advertising of perfumes for women. Analysis of the impact of eroticism in advertising of women’s perfumes was carried out through interviews and survey responding the presentation of specially designed stimulus material, developed on photo images published in specialized women magazines. Stimulus material was provided by 20 images advertising the women’s perfume. The results show that sexual advertisement will always be absolutely effective is not guaranteed. Images caring the indirect sexuality in advertising of some products are more effective.

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Держатели документа:
ФГАОУ ВПО «Сибирский федеральный университет институт архитектуры и дизайна»
ФГБУН «Институт вычислительного моделирования» Сибирского отделения Российской академии наук

Доп.точки доступа:
Садовский, Михаил Георгиевич; Sadovsky M.G.; Ivanova M.S.

[Text] : статья / Michael G. Sadovsky [et al.] // Журнал Сибирского федерального университета. Серия: Биология. - 2015. - Т. 8, № 3. - P278-286, DOI 10.17516/1997-1389-2015-8-3-278-286 . - ISSN 1997-1389
   Перевод заглавия: Симметрия транскриптома сибирской лиственницы

УДК

57

015 + 573.2

Аннотация: The paper presents a novel approach to infer a structuredness in a set of symbol sequences such as transcriptome nucleotide sequences. A distribution pattern of triplet frequencies in the Siberian larch (Larix sibirica Ledeb.) transcriptome sequences was investigated in the presented study. It was found that the larch transcriptome demonstrates a number of unexpected symmetries in the statistical and combinatorial properties.
Проанализированы структуры, выделяемые в транскриптоме лиственницы. Показано, что данный набор последовательностей обладает необычной симметрией своих статистических и комбинаторных свойств.

РИНЦ

Держатели документа:
Georg-August-University of Gottingen
Institute of Computational Modelling SB RAS
M University HFSB
N. I. Vavilov Institute of General Genetics RAS
Siberian Federal University Genome Research and Education Centre
Texas A&amp
V. N. Sukachev Institute of Forest SB RAS

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Birukov, Vladislav V.; Бирюков В.В.; Putintseva, Yuliya A.; Путинцева Ю.А.; Oreshkova, Nataliya V.; Орешкова Н.В.; Vaganov, Eugene A.; Ваганов Е.А.; Krutovsky, Konstantin V.; Крутовский К.В.

[Text] : статья / M. G. Sadovsky [et al.] // Журнал Сибирского федерального университета. Серия: Биология. - 2015. - Т. 8, № 3. - P268-277, DOI 10.17516/1997-1389-2015-8-3-268-277. . - ISSN 1997-1389
   Перевод заглавия: Семикластерная структура генома хлоропласта лиственницы

УДК

57

015 + 573.2

Аннотация: The paper presents a novel approach to study a nucleotide sequence structure with respect to the chloroplast genome DNA sequence analysis. A speci?c frequencies distribution pattern of the consecutive triple nucleotide fragments was identi?ed in the chloroplast genome DNA sequence, which demonstrated a non-degenerated pattern with seven clusters.
Проанализированы структуры, выделяемые в нуклеотидных последовательностях с помощью анализа распределений фрагментов генома. Показано, что последовательность генома хлоропласта обладает невырожденной семикластерной структурой в распределении таких фрагментов по частотам триплетов.

РИНЦ

Держатели документа:
Georg-August-University of Gottingen
Institute of Computational Modelling SB RAS
M University HFSB
N. I. Vavilov Institute of General Genetics RAS
Siberian Federal University Genome Research and Education Centre
Texas A&amp
V. N. Sukachev Institute of Forest SB RAS

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Bondar, Eugenia I.; Бондар Е.И.; Putintseva, Yulia A.; Путинцева Ю.А.; Oreshkova, Natalia V.; Орешкова Н.В.; Vaganov, Eugene A.; Ваганов Е.А.; Krutovsky, Konstantin V.; Крутовский К.В.

/ S. P. Tsarev, M. G. Sadovsky // Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). - 2016. - Vol. 9702: 3rd International Conference on Algorithms for Computational Biology, AlCoB 2016; Trujillo; Spain; 21 June 2016 through 22 June 2016; Code 177079. - P171-182, DOI 10.1007/978-3-319-38827-4_14 . -
Аннотация: A new method to identify all sufficiently long repeating nucleotide substrings in one or several DNA sequences is proposed. The method based on a specific gauge applied to DNA sequences that guarantees identification of the repeating substrings. The method allows the matching substrings to contain a given level of errors. The gauge is based on the development of a heavily sparse dictionary of repeats, thus drastically accelerating the search procedure. Some biological applications illustrate the method. © Springer International Publishing Switzerland 2016.

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Держатели документа:
Siberian Federal University, Kirenskogo, 26, Krasnoyarsk, Russian Federation
Institute of Computational Modelling of SB RAS, Akademgorodok, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Tsarev, S. P.; Sadovsky, M. G.

[Text] / M. Sadovsky, A. Chernyshova ; ed. S. . Battiston [et al.] // PROCEEDINGS OF ECCS 2014: EUROPEAN CONFERENCE ON COMPLEX SYSTEMS : SPRINGER, 2016. - European Conference on Complex Systems (ECCS) (SEP 22-26, 2014, IMT Sch Adv Studies Lucca, Lucca, ITALY). - P59-68. - (Springer Proceedings in Complexity), DOI 10.1007/978-3-319-29228-1_6. - Cited References:21 . - ISBN 978-3-319-29228-1; 978-3-319-29226-7РУБ Computer Science, Theory & Methods + Mathematics, Applied

Аннотация: The distribution of chloroplast genomes in 63-dimensional space of triplet frequencies was studied, in connection to the taxonomy correlation to the clusters observed in the distribution. That latter was developed through K-means implementation, for the number of classes varying from 2 to 8. The clade composition of those clusters has been analyzed. Unexpectedly high regularity in clades occupation of different clusters has been found thus proving very high synchrony in evolution of two physically independent genetic entities (chloroplasts vs. nuclear genomes): the proximity in frequency space was determined over the organelle genomes, while the proximity in taxonomy was determined morphologically.

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Держатели документа:
Inst Computat Modelling SB RAS, Krasnoyarsk, Russia.
Siberian Fed Univ, Krasnoyarsk, Russia.

Доп.точки доступа:
Sadovsky, M.G.; Садовский, Михаил Георгиевич; Chernyshova, Anna

[Text] / I. Borovikov, M. Sadovsky ; ed. S. . Battiston [et al.] // PROCEEDINGS OF ECCS 2014: EUROPEAN CONFERENCE ON COMPLEX SYSTEMS : SPRINGER, 2016. - European Conference on Complex Systems (ECCS) (SEP 22-26, 2014, IMT Sch Adv Studies Lucca, Lucca, ITALY). - P155-167. - (Springer Proceedings in Complexity), DOI 10.1007/978-3-319-29228-1_14. - Cited References:9 . - ISBN 978-3-319-29228-1; 978-3-319-29226-7РУБ Computer Science, Theory & Methods + Mathematics, Applied

Аннотация: Discretization of time series and encoding it as a string in a finite alphabet allows application of information theory methods developed for discrete signals. Computing information values of n-grams extracted from such string leads to introduction of events as occurrences of n-grams that possess specific properties, e.g. abnormally high (or low) information value. We define information value of an n-gram via maximum entropy lifts over frequency dictionaries. We also look for correlation between market events and n-gram events. The paper shows that the proposed method of time series analysis when applied to events study may provide new insightful perspective.

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Держатели документа:
Nekkar Net Int Labs, 51 Commons Ln, Foster City, CA 94404 USA.
Inst Computat Modelling SB RAS, Krasnoyarsk, Russia.

Доп.точки доступа:
Borovikov, Igor; Sadovsky, M.G.; Садовский, Михаил Георгиевич

/ V. Salmin [et al.] // (26 April 2017 through 28 April 2017 : Springer Verlag, 2017. - Vol. 10208 LNCS. - P591-601, DOI 10.1007/978-3-319-56148-6_53 . -
Аннотация: We studied the model of cerebral angiogenesis in vitro using lactate-releasing gelatin bioscaffolds and primary culture of brain endothelial cells. We found that development of microvessels from actively proliferating rat brain microvessels endothelial cells was greatly modified by the presence of lactate at the surface of the scaffold with different lactate-releasing ability. Fractal dimension of newly-established vessel loops allows precise characterizing the local microenvironment supporting cell growth on various types of gelatin scaffolds. © Springer International Publishing AG 2017.

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Держатели документа:
Research Institute of Molecular Medicine and Pathobiochemistry, Krasnoyarsk State Medical University, p. Zheleznyaka str., 1, Krasnoyarsk, Russian Federation
Institute of Computational Modelling of SB RAS, Akademgorodok, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Salmin, V.; Morgun, A.; Khilazheva, E.; Pisareva, N.; Boitsova, E.; Lavrentiev, P.; Sadovsky, M.G.; Садовский, Михаил Георгиевич; Salmina, A.

/ M. G. Sadovsky, E. Y. Bushmelev, A. N. Ostylovsky // J. Sib. Fed. Univ. Math. Phys. - 2017. - Vol. 10, Is. 4. - P443-449, DOI 10.17516/1997-1397-2017-10-4-443-449 . - ISSN 1997-1397
Аннотация: New method is proposed to identify clusters in datasets. The method is based on a sequential elimination of the longest distances in dataset, so that the relevant graph looses some edges. The method stops when the graph becomes disconnected. © Siberian Federal University. All rights reserved.

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Держатели документа:
Institute of computational modelling SB RAS, Akademgorodok, 50/44, Krasnoyarsk, Russian Federation
Institute of Mathematics and Computer Science, Siberian Federal University, Svobodny, 79, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Sadovsky, M. G.; Bushmelev, E. Y.; Ostylovsky, A. N.