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  1. 2020

  2. Specification and regulation of vascular tissue identity in the Arabidopsis embryo

    Smit, M. E., Llavata-Peris, C. I., Roosjen, M., van Beijnum, H., Novikova, D., Levitsky, V., Sevilem, I., Roszak, P., Slane, D., Jürgens, G., Mironova, V., Brady, S. M. & Weijers, D., 20 Apr 2020, In: Development (Cambridge). 147, 8, 15 p., dev186130.

    Research output: Contribution to journal › Article › peer-review

  3. Fold-change-specific enrichment analysis (FSEA): Quantification of transcriptional response magnitude for functional gene groups

    Wiebe, D. S., Omelyanchuk, N. A., Mukhin, A. M., Grosse, I., Lashin, S. A., Zemlyanskaya, E. V. & Mironova, V. V., 17 Apr 2020, In: Genes. 11, 4, 14 p., 434.

    Research output: Contribution to journal › Article › peer-review

  4. Genes containing long introns occupy series of bands and interbands in drosophila melanogaster polytene chromosomes

    Khoroshko, V. A., Pokholkova, G. V., Levitsky, V. G., Zykova, T. Y., Antonenko, O. V., Belyaeva, E. S. & Zhimulev, I. F., Apr 2020, In: Genes. 11, 4, 32 p., 417.

    Research output: Contribution to journal › Article › peer-review

  5. Faint gray bands in Drosophila melanogaster polytene chromosomes are formed by coding sequences of housekeeping genes

    Demakova, O. V., Demakov, S. A., Boldyreva, L. V., Zykova, T. Y., Levitsky, V. G., Semeshin, V. F., Pokholkova, G. V., Sidorenko, D. S., Goncharov, F. P., Belyaeva, E. S. & Zhimulev, I. F., 1 Mar 2020, In: Chromosoma. 129, 1, p. 25-44 20 p.

    Research output: Contribution to journal › Article › peer-review

  6. Использование гиперспектральной камеры Specim IQ для анализа растений

    Alt, V. V., Gurova, T. A., Elkin, O. V., Klimenko, D. N., Maximov, L. V., Pestunov, I. A., Dubrovskaya, O. A., Genaev, M. A., Erst, T. V., Genaev, K. A., Komyshev, E. G., Khlestkin, V. K. & Afonnikov, D. A., 1 Mar 2020, In: Вавиловский журнал генетики и селекции. 24, 3, p. 259-266 8 p., 6.

    Research output: Contribution to journal › Article › peer-review

  7. Candidate snp markers of atherogenesis significantly shifting the affinity of TATA-binding protein for human gene promoters show stabilizing natural selection as a sum of neutral drift accelerating atherogenesis and directional natural selection slowing it

    Ponomarenko, M., Rasskazov, D., Chadaeva, I., Sharypova, E., Drachkova, I., Oshchepkov, D., Ponomarenko, P., Savinkova, L., Oshchepkova, E., Nazarenko, M. & Kolchanov, N., 5 Feb 2020, In: International Journal of Molecular Sciences. 21, 3, 41 p., 1045.

    Research output: Contribution to journal › Article › peer-review

  8. Computer Simulation of the Evolution of Microbial Population: Overcoming Local Minima When Reaching a Peak on the Fitness Landscape

    Lashin, S. A., Mustafin, Z. S., Klimenko, A. I., Afonnikov, D. A. & Matushkin, Y. G., 1 Feb 2020, In: Russian Journal of Genetics. 56, 2, p. 242-252 11 p.

    Research output: Contribution to journal › Article › peer-review

  9. Identification of Antimicrobial Peptides from Novel Lactobacillus fermentum Strain

    Pavlova, A. S., Ozhegov, G. D., Arapidi, G. P., Butenko, I. O., Fomin, E. S., Alemasov, N. A., Afonnikov, D. A., Yarullina, D. R., Ivanov, V. T., Govorun, V. M. & Kayumov, A. R., 1 Feb 2020, In: Protein Journal. 39, 1, p. 73-84 12 p.

    Research output: Contribution to journal › Article › peer-review

  10. The Effect of Meditation on Comprehension of Statements About One-Self and Others: A Pilot ERP and Behavioral Study

    Savostyanov, A., Tamozhnikov, S., Bocharov, A., Saprygin, A., Matushkin, Y., Lashin, S., Kolpakova, G., Sudobin, K. & Knyazev, G., 9 Jan 2020, In: Frontiers in Human Neuroscience. 13, 12 p., 437.

    Research output: Contribution to journal › Article › peer-review

  11. A mathematical model linking Ca2+-dependent signaling pathway and gene expression regulation in Human Skeletal Muscle

    Akberdin, I. R., Vertyshev, A. Y., Pintus, S. S., Popov, D. V. & Kolpakov, F. A., 1 Jan 2020, In: Mathematical Biology and Bioinformatics. 15, 1, p. 20-39 20 p.

    Research output: Contribution to journal › Article › peer-review

  12. Potential regulatory SNPs in the ATXN7L3B and KRT15 genes are associated with gender-specific colorectal cancer risk

    Leberfarb, E. Y., Degtyareva, A. O., Brusentsov, I. I., Maximov, V. N., Voevoda, M. I., Autenshlus, A. I., Morozov, D. V., Sokolov, A. V. & Merkulova, T. I., Jan 2020, In: Personalized Medicine. 17, 1, p. 43-54 12 p.

    Research output: Contribution to journal › Article › peer-review

  13. Rdbms And Nosql Based Hybrid Technology for Transcriptome Data Structuring and Processing

    Mukhin, A. M., Genaev, M. A., Rasskazov, D. A., Lashin, S. A. & Afonnikov, D. A., 2020, In: Mathematical Biology and Bioinformatics. 15, 2, p. 455-470 16 p.

    Research output: Contribution to journal › Article › peer-review

  14. 2019

  15. The mTOR signaling pathway activity and vitamin d availability control the expression of most autism predisposition genes

    Trifonova, E. A., Klimenko, A. I., Mustafin, Z. S., Lashin, S. A. & Kochetov, A. V., 15 Dec 2019, In: International Journal of Molecular Sciences. 20, 24, 14 p., 6332.

    Research output: Contribution to journal › Article › peer-review

  16. A single ChIP-seq dataset is sufficient for comprehensive analysis of motifs co-occurrence with MCOT package

    Levitsky, V., Zemlyanskaya, E., Oshchepkov, D., Podkolodnaya, O., Ignatieva, E., Grosse, I., Mironova, V. & Merkulova, T., 2 Dec 2019, In: Nucleic Acids Research. 47, 21, p. e139 14 p.

    Research output: Contribution to journal › Article › peer-review

  17. Stress-induced changes in the expression of antioxidant system genes for rice (Oryza sativa L.) and bread wheat (Triticum aestivum L.)

    Ermakov, A., Bobrovskikh, A., Zubairova, U., Konstantinov, D. & Doroshkov, A., 29 Nov 2019, In: PeerJ. 7, 11, 28 p., e7791.

    Research output: Contribution to journal › Article › peer-review

  18. Phylostratigraphic analysis shows the earliest origination of the abiotic stress associated genes in a. Thaliana

    Mustafin, Z. S., Zamyatin, V. I., Konstantinov, D. K., Doroshkov, A. V., Lashin, S. A. & Afonnikov, D. A., 22 Nov 2019, In: Genes. 10, 12, 27 p., 963.

    Research output: Contribution to journal › Article › peer-review

  19. Behavior and Depression Gene Networks Reconstruction and Analysis

    Ivanov, R. A., Zamyatin, V. I., Klimenko, A. I., Astakhova, T. N., Matushkin, Y. G., Savostyanov, A. N. & Lashin, S. A., Oct 2019, SIBIRCON 2019 - International Multi-Conference on Engineering, Computer and Information Sciences, Proceedings. Institute of Electrical and Electronics Engineers Inc., p. 361-365 5 p. 8958072. (SIBIRCON 2019 - International Multi-Conference on Engineering, Computer and Information Sciences, Proceedings).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Research › peer-review

  20. Reconstruction and Analysis of Gene Networks of Human Neurotransmitter Systems Reveal Genes with Contentious Manifestation for Anxiety, Depression, and Intellectual Disabilities

    Ivanov, R., Zamyatin, V., Klimenko, A., Matushkin, Y., Savostyanov, A. & Lashin, S., 11 Sept 2019, In: Genes. 10, 9, 14 p., 699.

    Research output: Contribution to journal › Article › peer-review

  21. Candidate SNP Markers of Atherosclerosis That May Significantly Change the Affinity of the TATA-Binding Protein for the Human Gene Promoters

    Ponomarenko, M. P., Rasskazov, D. A., Chadaeva, I. V., Sharypova, E. B., Drachkova, I. A., Ponomarenko, P. M., Oshchepkova, E. A., Savinkova, L. K. & Kolchanov, N. A., 1 Sept 2019, In: Russian Journal of Genetics. 55, 9, p. 1137-1151 15 p.

    Research output: Contribution to journal › Article › peer-review

  22. Shaping Ethylene Response: The Role of EIN3/EIL1 Transcription Factors

    Dolgikh, V. A., Pukhovaya, E. M. & Zemlyanskaya, E. V., 26 Aug 2019, In: Frontiers in Plant Science. 10, p. 1030 9 p., 1030.

    Research output: Contribution to journal › Review article › peer-review

  23. Candidate SNP-markers of rheumatoid arthritis that can significantly alter the affinity of the TATA-binding protein for human gene promoters

    Chadaeva, I. V., Rasskazov, D. A., Sharypova, E. B., Drachkova, I. A., Oshchepkova, E. A., Savinkova, L. K., Ponomarenko, P. M., Ponomarenko, M. P., Kolchanov, N. A. & Kozlov, V. A., 1 Aug 2019, In: Вавиловский журнал генетики и селекции. 23, 8, p. 1047-1058 12 p.

    Research output: Contribution to journal › Article › peer-review

  24. Single nucleotide polymorphism rs110861313 in the intergenic region of chromosome 23 is associated with the development of leukosis in the Russian Black Pied cattle

    Aitnazarov, R. B., Ignatieva, E. V., Agarkova, T. A., Dvoeglazov, N. G., Osipova, N. A., Khramtsov, V. V. & Yudin, N. S., 1 Aug 2019, In: Вавиловский журнал генетики и селекции. 23, 8, p. 999-1005 7 p.

    Research output: Contribution to journal › Article › peer-review

  25. Morphometry of the wheat spike by analyzing 2D images

    Genaev, M. A., Komyshev, E. G., Smirnov, N. V., Kruchinina, Y. V., Goncharov, N. P. & Afonnikov, D. A., 17 Jul 2019, In: Agronomy. 9, 7, 390.

    Research output: Contribution to journal › Article › peer-review

  26. BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data

    Kolpakov, F., Akberdin, I., Kashapov, T., Kiselev, L., Kolmykov, S., Kondrakhin, Y., Kutumova, E., Mandrik, N., Pintus, S., Ryabova, A., Sharipov, R., Yevshin, I. & Kel, A., 1 Jul 2019, In: Nucleic Acids Research. 47, W1, p. W225-W233 9 p.

    Research output: Contribution to journal › Article › peer-review

  27. Insight into genetic and social aspects of modern communities of deaf people in Siberia for forecasting the prevalence of hereditary deafness

    Posukh, O. L., Bady-Khoo, M. S., Romanov, G. P., Barashkov, N. A., Smirnova, A. A., Zytsar, M. V., Maslova, E. A., Danilchenko, V. Y., Posukh, O. V. & Lashin, S. A., Jul 2019, In: European journal of human genetics. 27, p. 1038-1038 1 p.

    Research output: Contribution to journal › Meeting Abstract › peer-review

  28. Exome-wide search and functional annotation of genes associated in patients with severe tick-borne encephalitis in a Russian population

    Ignatieva, E. V., Yurchenko, A. A., Voevoda, M. I. & Yudin, N. S., 24 May 2019, In: BMC Medical Genomics. 12, Suppl 3, p. 61 23 p., 61.

    Research output: Contribution to journal › Article › peer-review

  29. New insights from Opisthorchis felineus genome: update on genomics of the epidemiologically important liver flukes

    Ershov, N. I., Mordvinov, V. A., Prokhortchouk, E. B., Pakharukova, M. Y., Gunbin, K. V., Ustyantsev, K., Genaev, M. A., Blinov, A. G., Mazur, A., Boulygina, E., Tsygankova, S., Khrameeva, E., Chekanov, N., Fan, G., Xiao, A., Zhang, H., Xu, X., Yang, H., Solovyev, V., Lee, S. M. Y., & 3 othersLiu, X., Afonnikov, D. A. & Skryabin, K. G., 22 May 2019, In: BMC Genomics. 20, 1, p. 399 22 p., 399.

    Research output: Contribution to journal › Article › peer-review

  30. Genomics research at Bioinformatics of Genome Regulation and Structure\ Systems Biology (BGRS\SB) conferences in Novosibirsk

    Orlov, Y. L., Kochetov, A. V., Li, G. & Kolchanov, N. A., 8 May 2019, In: BMC Genomics. 20, Suppl 3, 5 p., 322.

    Research output: Contribution to journal › Article › peer-review

  31. Spatial heterogeneity promotes antagonistic evolutionary scenarios in microbial community explained by ecological stratification: a simulation study

    Klimenko, A. I., Matushkin, Y. G., Kolchanov, N. A. & Lashin, S. A., 1 May 2019, In: Ecological Modelling. 399, p. 66-76 11 p.

    Research output: Contribution to journal › Article › peer-review

  32. Genome analysis identifies the mutant genes for common industrial Silverblue and Hedlund white coat colours in American mink

    Manakhov, A. D., Andreeva, T. V., Trapezov, O. V., Kolchanov, N. A. & Rogaev, E. I., 14 Mar 2019, In: Scientific Reports. 9, 1, p. 4581 8 p., 4581.

    Research output: Contribution to journal › Article › peer-review

  33. LSM-W 2: Laser scanning microscopy worker for wheat leaf surface morphology

    Zubairova, U. S., Verman, P. Y., Oshchepkova, P. A., Elsukova, A. S. & Doroshkov, A. V., 5 Mar 2019, In: BMC Systems Biology. 13, Suppl 1, p. 22 12 p., 22.

    Research output: Contribution to journal › Article › peer-review

  34. Architecture of Promoters of House-Keeping Genes in Polytene Chromosome Interbands of Drosophila melanogaster

    Zykova, T. Y., Levitsky, V. G. & Zhimulev, I. F., 1 Mar 2019, In: Doklady Biochemistry and Biophysics. 485, 1, p. 95-100 6 p.

    Research output: Contribution to journal › Article › peer-review

  35. Evolutionary biology and biodiversity research at BGRS-2018

    Orlov, Y. L., Baranova, A. V., Kolchanov, N. A. & Moroz, L. L., 26 Feb 2019, In: BMC Evolutionary Biology. 19, Suppl 1, p. 43 3 p., 43.

    Research output: Contribution to journal › Article › peer-review

  36. Natural selection equally supports the human tendencies in subordination and domination: A Genome-wide study with in silico confirmation and in vivo validation in mice

    Chadaeva, I., Ponomarenko, P., Rasskazov, D., Sharypova, E., Kashina, E., Kleshchev, M., Ponomarenko, M., Naumenko, V., Savinkova, L., Kolchanov, N., Osadchuk, L. & Osadchuk, A., 20 Feb 2019, In: Frontiers in Genetics. 10, FEB, 16 p., 73.

    Research output: Contribution to journal › Article › peer-review

  37. The evolution of gene regulatory networks controlling Arabidopsis thaliana L. trichome development

    Doroshkov, A. V., Konstantinov, D. K., Afonnikov, D. A. & Gunbin, K. V., 15 Feb 2019, In: BMC Plant Biology. 19, Suppl 1, 15 p., 53.

    Research output: Contribution to journal › Article › peer-review

  38. MIGREW: Database on molecular identification of genes for resistance in wheat

    Kazantsev, F. V., Skolotneva, E. S., Kelbin, V. N., Salina, E. A. & Lashin, S. A., 5 Feb 2019, In: BMC Bioinformatics. 20, Suppl 1, 8 p., 36.

    Research output: Contribution to journal › Article › peer-review

  39. A modular visual model of energy metabolism in human skeletal muscle

    Kiselev, I. N., Akberdin, I. R., Vertyshev, A. Y., D.V., P. & Kolpakov, F. A., 1 Jan 2019, In: Mathematical Biology and Bioinformatics. 14, 2, p. 373-392 20 p.

    Research output: Contribution to journal › Article › peer-review

  40. A system approach to the modeling of fungal infections of the wheat leaf

    Nikolaev, S. V., Zubairova, U. S., Skolotneva, E. S., Orlova, E. A. & Afonnikov, D. A., 1 Jan 2019, In: Вавиловский журнал генетики и селекции. 23, 1, p. 100-109 10 p.

    Research output: Contribution to journal › Article › peer-review

  41. Effect of neonatal dexamethasone treatment on cognitive abilities of adult male mice and gene expression in the hypothalamus

    Bondar, N. P., Reshetnikov, V. V., Burdeeva, K. V. & Merkulova, T. I., 1 Jan 2019, In: Вавиловский журнал генетики и селекции. 23, 4, p. 456-464 9 p.

    Research output: Contribution to journal › Article › peer-review

  42. Image-based analysis of quantitative morphological characteristics of wild potato tubers using the desktop application SeedСounter

    Ivanova, K. A., Komyshev, E. G., Genaev, M. A., Egorova, A. A., Koloshina, K. A., Chalaya, N. A., Afonnikov, D. A., Kochetov, A. V., Rogozina, E. V. & Gerasimova, S. V., 1 Jan 2019, In: Вавиловский журнал генетики и селекции. 23, 5, p. 519-526 8 p.

    Research output: Contribution to journal › Article › peer-review

  43. Progress in plant genome sequencing: Research directions

    Bragina, M. K., Afonnikov, D. A. & Salina, E. A., 1 Jan 2019, In: Вавиловский журнал генетики и селекции. 23, 1, p. 38-48 11 p.

    Research output: Contribution to journal › Article › peer-review

  44. Web-Based Computational Tools for the Prediction and Analysis of Posttranslational Modifications of Proteins

    Ivanisenko, V. A., Ivanisenko, T. V., Saik, O. V., Demenkov, P. S., Afonnikov, D. A. & Kolchanov, N. A., 1 Jan 2019, Methods in Molecular Biology. Humana Press, Vol. 1934. p. 1-20 20 p. (Methods in Molecular Biology; vol. 1934).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter › Research › peer-review

  45. 2018

  46. Deciphering auxin-ethylene crosstalk at a systems level

    Zemlyanskaya, E. V., Omelyanchuk, N. A., Ubogoeva, E. V. & Mironova, V. V., 14 Dec 2018, In: International Journal of Molecular Sciences. 19, 12, 15 p., 4060.

    Research output: Contribution to journal › Review article › peer-review

  47. Regulatory SNPs and their widespread effects on the transcriptome

    Merkulov, V. M., Leberfarb, E. Y. & Merkulova, T. I., 1 Dec 2018, In: Journal of Biosciences. 43, 5, p. 1069-1075 7 p.

    Research output: Contribution to journal › Review article › peer-review

  48. Rare Earth Elements alter redox balance in methylomicrobium alcaliphilum 20ZR

    Akberdin, I. R., Collins, D. A., Hamilton, R., Oshchepkov, D. Y., Shukla, A. K., Nicora, C. D., Nakayasu, E. S., Adkins, J. N. & Kalyuzhnaya, M. G., 27 Nov 2018, In: Frontiers in Microbiology. 9, NOV, p. 2735 12 p., 2735.

    Research output: Contribution to journal › Article › peer-review

  49. Genetic Organization of Open Chromatin Domains Situated in Polytene Chromosome Interbands in Drosophila

    Zykova, T. Y., Popova, O. O., Khoroshko, V. A., Levitsky, V. G., Lavrov, S. A. & Zhimulev, I. F., 1 Nov 2018, In: Doklady Biochemistry and Biophysics. 483, 1, p. 297-301 5 p.

    Research output: Contribution to journal › Article › peer-review

  50. Residue coevolution reveals functionally important intramolecular interactions in formamidopyrimidine-DNA glycosylase

    Endutkin, A. V., Koptelov, S. S., Popov, A. V., Torgasheva, N. A., Lomzov, A. A., Tsygankova, A. R., Skiba, T. V., Afonnikov, D. A. & Zharkov, D. O., 1 Sept 2018, In: DNA Repair. 69, p. 24-33 10 p.

    Research output: Contribution to journal › Article › peer-review

  51. Novel approach to functional SNPs discovery from genome-wide data reveals promising variants for colon cancer risk

    Korbolina, E. E., Brusentsov, I. I., Bryzgalov, L. O., Leberfarb, E. Y., Degtyareva, A. O. & Merkulova, T. I., 1 Jun 2018, In: Human Mutation. 39, 6, p. 851-859 9 p.

    Research output: Contribution to journal › Article › peer-review

  52. A matrix metalloproteinase 9 (MMP9) gene single nucleotide polymorphism is associated with predisposition to tick-borne encephalitis virus-induced severe central nervous system disease

    Barkhash, A. V., Yurchenko, A. A., Yudin, N. S., Ignatieva, E. V., Kozlova, I. V., Borishchuk, I. A., Pozdnyakova, L. L., Voevoda, M. I. & Romaschenko, A. G., 1 May 2018, In: Ticks and Tick-borne Diseases. 9, 4, p. 763-767 5 p.

    Research output: Contribution to journal › Article › peer-review

  53. Marital Structure, Genetic Fitness, and the GJB2 Gene Mutations among Deaf People in Yakutia (Eastern Siberia, Russia)

    Romanov, G. P., Barashkov, N. A., Teryutin, F. M., Lashin, S. A., Solovyev, A. V., Pshennikova, V. G., Bondar, A. A., Morozov, I. V., Sazonov, N. N., Tomsky, M. I., Dzhemileva, L. U., Khusnutdinova, E. K., Posukh, O. L. & Fedorova, S. A., 1 May 2018, In: Russian Journal of Genetics. 54, 5, p. 554-561 8 p.

    Research output: Contribution to journal › Article › peer-review

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