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  1. 2023

  2. DyCeModel: a tool for 1D simulation for distribution of plant hormones controlling tissue patterning

    Azarova, D. S., Omelyanchuk, N. A., Mironova, V. V., Zemlyanskaya, E. V. & Lavrekha, V. V., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 7, p. 890-897 8 p.

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

  3. Gene networks for use in metabolomic data analysis of blood plasma from patients with postoperative delirium

    Ivanisenko, V. A., Basov, N. V., Makarova, A. A., Venzel, A. S., Rogachev, A. D., Demenkov, P. S., Ivanisenko, T. V., Kleshchev, M. A., Gaisler, E. V., Moroz, G. B., Plesko, V. V., Sotnikova, Y. S., Patrushev, Y. V., Lomivorotov, V. V., Kolchanov, N. A. & Pokrovsky, A. G., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 7, p. 768-775 8 p.

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

  4. InterTransViewer: a comparative description of differential gene expression profiles from different experiments

    Tyapkin, А. V., Lavrekha, V. V., Ubogoeva, E. V., Oshchepkov, D. Y., Omelyanchuk, N. A. & Zemlyanskaya, E. V., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 8, p. 1042-1052 11 p.

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

  5. Molecular-genetic pathways of hepatitis C virus regulation of the expression of cellular factors PREB and PLA2G4C, which play an important role in virus replication

    Mishchenko, E. L., Makarova, A. A., Antropova, E. A., Venzel, A. S., Ivanisenko, T. V., Demenkov, P. S. & Ivanisenko, V. A., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 7, p. 776-783 8 p.

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

  6. Prioritization of potential pharmacological targets for the development of anti-hepatocarcinoma drugs modulating the extrinsic apoptosis pathway: the reconstruction and analysis of associative gene networks help

    Demenkov, P. S., Antropova, E. A., Adamovskaya, A. V., Mishchenko, E. L., Khlebodarova, T. M., Ivanisenko, T. V., Ivanisenko, N. V., Venzel, A. S., Lavrik, I. N. & Ivanisenko, V. A., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 7, p. 784-793 10 p.

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

  7. Reconstruction and analysis of the gene regulatory network for cell wall function in Arabidopsis thaliana L. leaves in response to water deficit

    Volyanskaya, A. R., Antropova, E. A., Zubairova, U. S., Demenkov, P. S., Venzel, A. S., Orlov, Y. L., Makarova, A. A., Ivanisenko, T. V., Gorshkova, T. A., Aglyamova, A. R., Kolchanov, N. A., Chen, M. & Ivanisenko, V. A., Dec 2023, In: Vavilovskii Zhurnal Genetiki i Selektsii. 27, 8, p. 1031-1041 11 p.

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

  8. Repurposing Antihypertensive and Statin Medications for Spinal Pain: A Mendelian Randomization Study

    Suri, P., Elgaeva, E. E., Williams, F. M. K., Freidin, M. B., Verzun, D. A. & Tsepilov, Y. A., 15 Nov 2023, In: Spine. 48, 22, p. 1568-1574 7 p.

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

  9. Bidirectional Mendelian Randomization study of personality traits reveals a positive feedback loop between neuroticism and back pain

    Elgaeva, E. E., Williams, F. M. K., Zaytseva, O. O., Freidin, M. B., Aulchenko, Y. S., Suri, P. & Tsepilov, Y. A., Oct 2023, In: The journal of pain. 24, 10, p. 1875-1885 11 p.

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

  10. Accurate noise-robust classification of Bacillus species from MALDI-TOF MS spectra using a denoising autoencoder

    Uvarova, Y. E., Demenkov, P. S., Kuzmicheva, I. N., Venzel, A. S., Mischenko, E. L., Ivanisenko, T. V., Efimov, V. M., Bannikova, S. V., Vasilieva, A. R., Ivanisenko, V. A. & Peltek, S. E., 1 Sept 2023, In: Journal of integrative bioinformatics. 20, 3, 12 p.

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

  11. Reconstruction of the regulatory hypermethylation network controlling hepatocellular carcinoma development during hepatitis C viral infection

    Antropova, E. A., Khlebodarova, T. M., Demenkov, P. S., Volianskaia, A. R., Venzel, A. S., Ivanisenko, N. V., Gavrilenko, A. D., Ivanisenko, T. V., Adamovskaya, A. V., Revva, P. M., Kolchanov, N. A., Lavrik, I. N. & Ivanisenko, V. A., 1 Sept 2023, In: Journal of integrative bioinformatics. 20, 3, 12 p.

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

  12. Evidence of causal effects of blood pressure on back pain and back pain on type II diabetes provided by a bidirectional Mendelian randomization study

    Suri, P., Elgaeva, E. E., Williams, F. M. K., Freidin, M. B., Zaytseva, O. O., Aulchenko, Y. S. & Tsepilov, Y. A., Aug 2023, In: Spine Journal. 23, 8, p. 1161-1171 11 p.

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

  13. Genotype-by-environment interactions in chronic back pain

    Kuznetsov, I. A., Tsepilov, Y. A., Freidin, M. B., Williams, F. M. K., Suri, P. & Aulchenko, Y. S., Aug 2023, In: Spine Journal. 23, 8, p. 1108-1114 7 p.

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

  14. Specifics of the Taxonomic Composition of Bacterial Microflora in the Respiratory Microbiome of Patients with Chronic Dust Bronchitis

    Paradnikova, S. A., Druzhinin, V. G., Baranova, E. D., Demenkov, P. S. & Larionov, A. V., Jun 2023, In: Molecular Genetics, Microbiology and Virology. 38, 2, p. 70-78 9 p.

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

  15. Cell type-specific interpretation of noncoding variants using deep learning-based methods

    Sindeeva, M., Chekanov, N., Avetisian, M., Shashkova, T. I., Baranov, N., Malkin, E., Lapin, A., Kardymon, O. & Fishman, V., 20 Mar 2023, In: GigaScience. 12, p. 1-11 11 p., giad015.

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

  16. Function and Evolution of the Loop Extrusion Machinery in Animals

    Kabirova, E., Nurislamov, A., Shadskiy, A., Smirnov, A., Popov, A., Salnikov, P., Battulin, N. & Fishman, V., 6 Mar 2023, In: International Journal of Molecular Sciences. 24, 5, 5017.

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

  17. A Cre-LoxP-based approach for combinatorial chromosome rearrangements in human HAP1 cells

    Khabarova, A., Koksharova, G., Salnikov, P., Belokopytova, P., Mungalov, R., Pristyazhnuk, I., Nurislamov, A., Gridina, M. & Fishman, V., 26 Feb 2023, In: Chromosome Research. 31, 1, 15 p., 11.

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

  18. Benefits of NGS for Genetic Testing of Primary Lymphedema

    Kokh, N. V., Sergeevna, K. G., Gridina, M., Ivanoshchuk, D., Fishman, V. & Nimaev, V., 2023, 2023 IEEE Ural-Siberian Conference on Computational Technologies in Cognitive Science, Genomics and Biomedicine, CSGB 2023 - Proceedings. Institute of Electrical and Electronics Engineers Inc., p. 133-136 4 p. (2023 IEEE Ural-Siberian Conference on Computational Technologies in Cognitive Science, Genomics and Biomedicine, CSGB 2023 - Proceedings).

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

  19. Composition of bacterial microbiome in sputum of patients with localized forms of pulmonary tuberculosis

    Druzhinin, V. G., Baranova, E. D., Demenkov, P. S., Zakharova, J. V., Lavryashina, M. B., Larionov, A. V., Matskova, L. V., Shabaldin, A. V. & Pyanzova, T. V., 2023, In: Pulmonologiya. 33, 5, p. 645-656 12 p.

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

  20. 2022

  21. Anopheles mosquitoes reveal new principles of 3D genome organization in insects

    Lukyanchikova, V., Nuriddinov, M., Belokopytova, P., Taskina, A., Liang, J., Reijnders, M. J. M. F., Ruzzante, L., Feron, R., Waterhouse, R. M., Wu, Y., Mao, C., Tu, Z., Sharakhov, I. V. & Fishman, V., Dec 2022, In: Nature Communications. 13, 1, 1960.

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

  22. Evaluation of the α-casein (CSN1S1) locus as a potential target for a site-specific transgene integration

    Smirnov, A. V., Kontsevaya, G. V., Shnaider, T. A., Yunusova, A. M., Feofanova, N. A., Gerlinskaya, L. A., Serova, I. A., Serov, O. L. & Battulin, N. R., Dec 2022, In: Scientific Reports. 12, 1, 7983.

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

  23. FastContext: A tool for identification of adapters and other sequence patterns in next generation sequencing (NGS) data

    Viesná, Е. & Fishman, V., Dec 2022, In: Vavilovskii Zhurnal Genetiki i Selektsii. 26, 8, p. 806-809 4 p., 10.

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

  24. Genetic regulation of post-translational modification of two distinct proteins

    Landini, A., Trbojević-Akmačić, I., Navarro, P., Tsepilov, Y. A., Sharapov, S. Z., Vučković, F., Polašek, O., Hayward, C., Petrović, T., Vilaj, M., Aulchenko, Y. S., Lauc, G., Wilson, J. F. & Klarić, L., Dec 2022, In: Nature Communications. 13, 1, 1 p., 1586.

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

  25. Молекулярные механизмы детерминации клеток сосудистой системы корня Arabidopsis thaliana L

    Sidorenko, A. D., Omelyanchuk, N. A. & Zemlyanskaya, E. V., Dec 2022, In: Vavilovskii Zhurnal Genetiki i Selektsii. 26, 8, p. 721-732 12 p., 1.

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

  26. Method for the Isolation of “RNA-seq-Quality” RNA from Human Intervertebral Discs after Mortar and Pestle Homogenization

    Ivanov, A. A., Leonova, O. N., Wiebe, D. S., Krutko, A. V., Gridina, M. M., Fishman, V. S., Aulchenko, Y. S., Tsepilov, Y. A. & Golubeva, T. S., Nov 2022, In: Cells. 11, 22, 3578.

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

  27. Single-Cell DNA Methylation Analysis of Chicken Lampbrush Chromosomes

    Nurislamov, A., Lagunov, T., Gridina, M., Krasikova, A. & Fishman, V., 20 Oct 2022, In: International Journal of Molecular Sciences. 23, 20, 12601.

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

  28. Editorial: The role of high-order chromatin organization in gene regulation

    Fishman, V. & Pindyurin, A. V., 3 Oct 2022, In: Frontiers in Genetics. 13, 1045787.

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

  29. A Novel Framework for Analysis of the Shared Genetic Background of Correlated Traits

    Svishcheva, G. R., Tiys, E. S., Elgaeva, E. E., Feoktistova, S. G., Timmers, P. R. H. J., Sharapov, S. Z., Axenovich, T. I. & Tsepilov, Y. A., Oct 2022, In: Genes. 13, 10, 1694.

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

  30. Comparison and critical assessment of single-cell Hi-C protocols

    Gridina, M., Taskina, A., Lagunov, T., Nurislamov, A., Kulikova, T., Krasikova, A. & Fishman, V., Oct 2022, In: Heliyon. 8, 10, 6 p., e11023.

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

  31. Meet your MAKR: the membrane-associated kinase regulator protein family in the regulation of plant development

    Novikova, D. D., Korosteleva, A. L., Mironova, V. & Jaillais, Y., Oct 2022, In: FEBS Journal. 289, 20, p. 6172-6186 15 p.

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

  32. The human EF1a promoter does not provide expression of the transgene in mice

    Battulin, N., Korablev, A., Ryzhkova, A., Smirnov, A., Kabirova, E., Khabarova, A., Lagunov, T., Serova, I. & Serov, O., Oct 2022, In: Transgenic Research. 31, 4-5, p. 525-535 11 p.

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

  33. CisCross: A gene list enrichment analysis to predict upstream regulators in Arabidopsis thaliana

    Lavrekha, V. V., Levitsky, V. G., Tsukanov, A. V., Bogomolov, A. G., Grigorovich, D. A., Omelyanchuk, N., Ubogoeva, E. V., Zemlyanskaya, E. V. & Mironova, V., 18 Aug 2022, In: Frontiers in Plant Science. 13, 942710.

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

  34. Web-MCOT Server for Motif Co-Occurrence Search in ChIP-Seq Data

    Levitsky, V. G., Mukhin, A. M., Oshchepkov, D. Y., Zemlyanskaya, E. V. & Lashin, S. A., 11 Aug 2022, In: International Journal of Molecular Sciences. 23, 16, 8981.

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

  35. 3DGenBench: a web-server to benchmark computational models for 3D Genomics

    Belokopytova, P., Viesná, E., Chiliński, M., Qi, Y., Salari, H., Di Stefano, M., Esposito, A., Conte, M., Chiariello, A. M., Teif, V. B., Plewczynski, D., Zhang, B., Jost, D. & Fishman, V., 5 Jul 2022, In: Nucleic Acids Research. 50, W1, p. W4-W12

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

  36. Causal effects of psychosocial factors on chronic back pain: a bidirectional Mendelian randomisation study

    Williams, F. M. K., Elgaeva, E. E., Freidin, M. B., Zaytseva, O. O., Aulchenko, Y. S., Tsepilov, Y. A. & Suri, P., Jul 2022, In: European Spine Journal. 31, 7, p. 1906-1915 10 p.

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

  37. Платформа GWAS-MAP|ovis для хранения и анализа результатов полногеномных ассоциативных исследований овец

    A V Kirichenko, A. V., Zlobin, A. S., Shashkova, T. I., Volkova, N. A., Iolchiev, B. S., Bagirov, V. A., Borodin, P. M., Karssen, L. С., Tsepilov, Y. A. & Aulchenko, Y. S., Jul 2022, In: Vavilovskii Zhurnal Genetiki i Selektsii. 26, 4, p. 378-384 7 p., 6.

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

  38. Создание трансгенных мышей, восприимчивых к коронавирусам: платформа изучения вирусного патогенеза и тестирования вакцин

    Battulin, N. R. & Serov, O. L., Jul 2022, In: Vavilovskii Zhurnal Genetiki i Selektsii. 26, 4, p. 402-408 7 p., 9.

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

  39. sumSTAAR: A flexible framework for gene-based association studies using GWAS summary statistics

    Belonogova, N. M., Svishcheva, G. R., Kirichenko, A. V., Zorkoltseva, I. V., Tsepilov, Y. A. & Axenovich, T. I., Jun 2022, In: PLoS Computational Biology. 18, 6, e1010172.

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

  40. Investigation of the causal relationships between human IgG N-glycosylation and 12 common diseases associated with changes in the IgG N-glycome

    Zaytseva, O. O., Sharapov, S. Z., Perola, M., Esko, T., Landini, A., Hayward, C., Wilson, J. F., Lauc, G., Aulchenko, Y. S., Klarić, L. & Tsepilov, Y. A., 15 May 2022, In: Human Molecular Genetics. 31, 10, p. 1545-1559 15 p.

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

  41. A protocol for recruiting and analyzing the disease-oriented Russian disc degeneration study (RuDDS) biobank for functional omics studies of lumbar disc degeneration

    Leonova, O. N., Elgaeva, E. E., Golubeva, T. S., Peleganchuk, A. V., Krutko, A. V., Aulchenko, Y. S. & Tsepilov, Y. A., May 2022, In: PLoS ONE. 17, 5, e0267384.

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

  42. Mendelian randomization analysis of plasma levels of CD209 and MICB proteins and the risk of varicose veins of lower extremities

    Shadrina, A. S., Elgaeva, E. E., Stanaway, I. B., Jarvik, G. P., Namjou, B., Wei, W. Q., Glessner, J., Hakonarson, H., Suri, P. & Tsepilov, Y. A., May 2022, In: PLoS ONE. 17, 5, e0268725.

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

  43. Evaluation of causal relationships between varicose veins of lower extremities and knee osteoarthritis using large-scale genetic data

    Shadrina, A. S., Elgaeva, E. E., Freidin, M. B. & Цепилов, Я. А., Apr 2022, p. 301. 1 p.

    Research output: Contribution to conference › Abstract › peer-review

  44. New genes for coronary artery disease detected via gene-based association analysis

    Zorkoltseva, I. V., Belonogova, N. M., Shadrina, A. S., Kirichenko, A., Цепилов, Я. А. & Аксенович, Т. И., Apr 2022, p. 587-588. 2 p.

    Research output: Contribution to conference › Abstract › peer-review

  45. Sitting-to-standing height ratio is a sex-specific risk factor for chronic back pain

    Freidin, M. B., Цепилов, Я. А., Аульченко, Ю. С., Suri, P. & Williams, F. M. K., Apr 2022, p. 157-158. 2 p.

    Research output: Contribution to conference › Abstract › peer-review

  46. Salicylic Acid in Root Growth and Development

    Bagautdinova, Z. Z., Omelyanchuk, N., Tyapkin, A. V., Kovrizhnykh, V. V., Lavrekha, V. V. & Zemlyanskaya, E. V., 1 Feb 2022, In: International Journal of Molecular Sciences. 23, 4, 2228.

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

  47. Mendelian randomization of genetically independent aging phenotypes identifies LPA and VCAM1 as biological targets for human aging

    Timmers, P. R. H. J., Tiys, E. S., Sakaue, S., Akiyama, M., Kiiskinen, T. T. J., Zhou, W., Hwang, S. J., Yao, C., Kamatani, Y., Zhou, W., Deelen, J., Levy, D., Ganna, A., Kamatani, Y., Okada, Y., Joshi, P. K., Wilson, J. F. & Tsepilov, Y. A., Jan 2022, In: Nature Aging. 2, 1, p. 19-30 12 p.

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

  48. Meta-analysis of genome-wide association studies for N-glycosylation in 10,000 individuals

    Шарапов, С. Ж., Цепилов, Я. А., Елгаева, Е. Е., Тийс, Е. С., Ностаева, А. В., Vuckovic, F., Trbojević-Akmačić, I., Georges, M., Suhre, K., Chaturvedi, N., Campbell, H., Dunlop, M. G., Williams, F. M. K., Schulze, M. B., Spector, T. D., Lauc, G. & Аульченко, Ю. С., 2022, p. 589. 1 p.

    Research output: Contribution to conference › Abstract › peer-review

  49. 2021

  50. Concatenation of transgenic DNA: Random or orchestrated?

    Smirnov, A. & Battulin, N., Dec 2021, In: Genes. 12, 12, 1969.

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

  51. Genome-wide association study identifies RNF123 locus as associated with chronic widespread musculoskeletal pain

    Rahman, M. S., Winsvold, B. S., Chavez Chavez, S. O., Børte, S., Tsepilov, Y. A., Sharapov, S. Z., Aulchenko, Y. S., Hagen, K., Fors, E. A., Hveem, K., Zwart, J. A., Van Meurs, J. B., Freidin, M. B. & Williams, F. M. K., 1 Sept 2021, In: Annals of the rheumatic diseases. 80, 9, p. 1227-1235 9 p.

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

  52. Number of Genes Associated with Neuroticism due to Their Polymorphisms

    Axenovich, T. I., Belonogova, N. M., Zorkoltseva, I. V. & Tsepilov, Y. A., Jul 2021, In: Russian Journal of Genetics. 57, 7, p. 863-866 4 p.

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

  53. Genetically independent Phenotype Analysis Identifies LPA and VCAM1 as Drug Targets for Human Ageing

    Timmers, P., Tiys, E., Sakaue, S., Akiyama, M., Kiiskinen, T., Zhou Wei, Hwang, S-J., Yao Chen, Deelen, J., Levy, D., Ganna, A., Kamatani, Y., Okada, Y., Joshi, P., Wilson, J. F. & Tsepilov, Y., May 2021, In: Human Heredity. 85, 2, p. 95-95 1 p.

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

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