Павел Сергеевич Деменков - Research output

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2025
Metabolomic and gene networks approaches reveal the role of mitochondrial membrane proteins in response of human melanoma cells to THz radiation
Butikova, E. A., Basov, N. V., Rogachev, A. D., Gaisler, E. V., Ivanisenko, V. A., Demenkov, P. S., Makarova, A. L. A., Ivanisenko, T. V., Razumov, I. A., Kolomeyets, D. A., Cheresiz, S. V., Solovieva, O. I., Larionov, K. P., Sotnikova, Y. S., Patrushev, Y. V., Kolchanov, N. A., Pokrovsky, A. G., Vinokurov, N. A., Kanygin, V. V., Popik, V. M., & 1 othersShevchenko, O. A., Mar 2025, In: Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids. 1870, 2, 17 p., 159595.
Research output: Contribution to journal › Article › peer-review
2024
Candidate SNP markers of changes in the expression levels of the human SCN9A gene as a hub gene for pain generation, perception, response and anesthesia
Dotsenko, P. A., Zolotareva, K. A., Ivanov, R. A., Chadaeva, I. V., Podkolodnyy, N. L., Ivanisenko, V. A., Demenkov, P. S., Lashin, S. A. & Ponomarenko, M. P., Dec 2024, In: Vavilovskii Zhurnal Genetiki i Selektsii. 28, 8, p. 808-821 14 p.
Research output: Contribution to journal › Article › peer-review
Candidate SNP Markers Significantly Altering the Affinity of the TATA-Binding Protein for the Promoters of Human Genes Associated with Primary Open-Angle Glaucoma
Zolotareva, K., Dotsenko, P. A., Podkolodnyy, N., Ivanov, R., Makarova, A. L., Chadaeva, I., Bogomolov, A., Demenkov, P. S., Ivanisenko, V., Oshchepkov, D. & Ponomarenko, M., Dec 2024, In: International Journal of Molecular Sciences. 25, 23, 12802.
Research output: Contribution to journal › Article › peer-review
Could SLC26A7 Be a Promising Marker for Preoperative Diagnosis of High-Grade Papillary Thyroid Carcinoma?
Titov, S. E., Kozorezova, E. S., Lukyanov, S. A., Sergiyko, S. V., Demenkov, P. S., Veryaskina, Y. A., Vorobyev, S. L., Sleptsov, I. V., Chernikov, R. A., Timofeeva, N. I., Barashkova, S. V., Lushnikova, E. L., Uspenskaya, A. A., Zolotoukho, A. V., Romanova, O. V. & Zhimulev, I. F., Dec 2024, In: Diagnostics. 14, 23, 2652.
Research output: Contribution to journal › Article › peer-review
Reconstruction and computational analysis of the microRNA regulation gene network in wheat drought response mechanisms
Kleshchev, M. A., Maltseva, A. V., Antropova, E. A., Demenkov, P. S., Ivanisenko, T. V., Orlov, Y. L., Chao, H., Chen, M., Kolchanov, N. A. & Ivanisenko, V. A., Dec 2024, In: Vavilovskii Zhurnal Genetiki i Selektsii. 28, 8, p. 904-917 14 p.
Research output: Contribution to journal › Article › peer-review
Программа для проведения филостратиграфического анализа генных сетей Homo sapiens, полученных с помощью ANDSystem (ЭНДФилострат) / A program for conducting phylostratigraphic analysis of Homo sapiens gene networks obtained using ANDSystem (ANDPhylostrat)
Яцык, И. В., Иванисенко, Т. В., Деменков, П. С. & Иванисенко, В. А., 27 Nov 2024, Patent No. 2024688299, 24 Oct 2024, Priority date 24 Oct 2024, Priority No. 2024685094
Research output: Patent › Software registration
An Accurate and Efficient Approach to Knowledge Extraction from Scientific Publications Using Structured Ontology Models, Graph Neural Networks, and Large Language Models
Ivanisenko, T. V., Demenkov, P. S. & Ivanisenko, V. A., 3 Nov 2024, In: International Journal of Molecular Sciences. 25, 21, 11811.
Research output: Contribution to journal › Article › peer-review
AI-Assisted Identification of Primary and Secondary Metabolomic Markers for Postoperative Delirium
Ivanisenko, V. A., Rogachev, A. D., Makarova, A-L. A., Basov, N. V., Gaisler, E. V., Kuzmicheva, I. N., Demenkov, P. S., Venzel, A. S., Ivanisenko, T. V., Antropova, E. A., Kolchanov, N. A., Plesko, V. V., Moroz, G. B., Lomivorotov, V. V. & Pokrovsky, A. G., Nov 2024, In: International Journal of Molecular Sciences. 25, 21, 11847.
Research output: Contribution to journal › Article › peer-review
SmartCrop cognitive platform: modules for automatic knowledge extraction from scientific publications, patents and factual databases for reconstruction and analysis of gene networks of stress response in rice and wheat
Иванисенко, В. А., Деменков, П. С., Иванисенко, Т. В., Антропова, Е. А., Волянская, А. Р., Зубаирова, У. С., Макарова, А-Л. А., Орлов, Ю. Л. & Chen, M., Aug 2024, Bioinformatics of Genome Regulation and Structure Systems Biology (BGRS/SB-2024): The 14th International Multiconference (05-10 August 2024, Novosibirsk, Russia). Новосибирск: Institute of Cytology and Genetics of Siberian Branch of the Russian Academy of Sciences, p. 2188-2190 3 p.
Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Research › peer-review
Prediction of the Aggressive Clinical Course of Papillary Thyroid Carcinoma Based on Fine Needle Aspiration Biopsy Molecular Testing
Lukyanov, S. A., Titov, S. E., Kozorezova, E. S., Demenkov, P. S., Veryaskina, Y. A., Korotovskii, D. V., Ilyina, T. E., Vorobyev, S. L., Zhivotov, V. A., Bondarev, N. S., Sleptsov, I. V. & Sergiyko, S. V., Jul 2024, In: International Journal of Molecular Sciences. 25, 13, 14 p., 7090.
Research output: Contribution to journal › Article › peer-review
Computational identification of promising genetic markers associated with molecular mechanisms of reduced rice resistance to Rhizoctonia solani under excess nitrogen fertilization using gene network reconstruction and analysis methods
Antropova, E. A., Volyanskaya, A. R., Adamovskaya, A. V., Demenkov, P. S., Yatsyk, I. V., Ivanisenko, T. V., Orlov, Y. L., Haoyu, C., Chen, M. & Ivanisenko, V. A., 2024, In: Vavilovskii Zhurnal Genetiki i Selektsii. 28, 8, p. 960-973 14 p.
Research output: Contribution to journal › Article › peer-review
Gene networks and metabolomic screening analysis revealed specific pathways of amino acid and acylcarnitine profile alterations in blood plasma of patients with Parkinson’s disease and vascular parkinsonism
Makarova, A. A., Melnikova, P. M., Rogachev, A. D., Demenkov, P. S., Ivanisenko, T. V., Predtechenskaya, E. V., Karmanov, S. Y., Koval, V. V., Pokrovsky, A. G., Lavrik, I. N., Kolchanov, N. A. & Ivanisenko, V. A., 2024, In: Вавиловский журнал генетики и селекции. 28, 8, p. 927-939 13 p.
Research output: Contribution to journal › Article › peer-review
Investigation of metabolic features of glioblastoma tissue and the peritumoral environment using targeted metabolomics screening by LC-MS/MS and gene network analysis
Basov, N. V., Adamovskaya, A. V., Rogachev, A. D., Gaisler, E. V., Demenkov, P. S., Ivanisenko, T. V., Venzel, A. S., Mishinov, S. V., Stupak, V. V., Cheresiz, S. V., Oleshko, O. S., Butikova, E. A., Osechkova, A. E., Sotnikova, Y. S., Patrushev, Y. V., Pozdnyakov, A. S., Lavrik, I. N., Ivanisenko, V. A. & Pokrovsky, A. G., 2024, In: Вавиловский журнал генетики и селекции. 28, 8, p. 882-896 15 p.
Research output: Contribution to journal › Article › peer-review
Reconstruction and computer analysis of the structural and functional organization of the gene network regulating cholesterol biosynthesis in humans and the evolutionary characteristics of the genes involved in the network
Mikhailova, A. D., Lashin, S. A., Ivanisenko, V. A., Demenkov, P. S. & Игнатьева, Е. В., 2024, In: Вавиловский журнал генетики и селекции. 28, 8, p. 864-873 10 p.
Research output: Contribution to journal › Article › peer-review
Сравнительная молекулярная оценка неизмененной слизистой оболочки сегментов толстой кишки как возможной основы аденом
Korotkevich, A. G., Zhilina, N. M., Demenkov, P. S., Veryaskina, Y. A. & Titov, S. E., 2024, In: Экспериментальная и клиническая гастроэнтерология. 4 (224), p. 20-29 10 p., 3.
Research output: Contribution to journal › Article › peer-review
2023
Программа расшифровки аббревиатур сущностей в рефератах научных публикаций на основе их контекста (ЭНДДекрипт) / Program for decoding entity abbreviations in abstracts of scientific publications based on their context (ANDDecrypt)
Иванисенко, Т. В., Деменков, П. С. & Иванисенко, В. А., 8 Dec 2023, Роспатент - Федеральная служба по интеллектуальной собственности, Patent No. 2023686851, 16 Nov 2023, Priority date 16 Nov 2023, Priority No. 2023684403
Research output: Patent › Software registration
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
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
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
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
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
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
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
Candidate SNP Markers Significantly Altering the Affinity of TATA-Binding Protein for the Promoters of Human Hub Genes for Atherogenesis, Atherosclerosis and Atheroprotection
Bogomolov, A., Filonov, S., Chadaeva, I., Rasskazov, D., Khandaev, B., Zolotareva, K., Kazachek, A., Oshchepkov, D., Ivanisenko, V. A., Demenkov, P., Podkolodnyy, N., Kondratyuk, E., Ponomarenko, P., Podkolodnaya, O., Mustafin, Z., Savinkova, L., Kolchanov, N., Tverdokhleb, N. & Ponomarenko, M., 19 May 2023, In: International Journal of Molecular Sciences. 24, 10, 9010.
Research output: Contribution to journal › Article › peer-review
Differentially Expressed Genes and Molecular Susceptibility to Human Age-Related Diseases
Shikhevich, S., Chadaeva, I., Khandaev, B., Kozhemyakina, R., Zolotareva, K., Kazachek, A., Oshchepkov, D., Bogomolov, A., Klimova, N. V., Ivanisenko, V. A., Demenkov, P., Mustafin, Z., Markel, A., Savinkova, L., Kolchanov, N. A., Kozlov, V. & Ponomarenko, M., 16 Feb 2023, In: International Journal of Molecular Sciences. 24, 4, 3996.
Research output: Contribution to journal › Article › peer-review
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
2022
Plasma metabolomics and gene regulatory networks analysis reveal the role of nonstructural SARS-CoV-2 viral proteins in metabolic dysregulation in COVID-19 patients
Ivanisenko, V. A., Gaisler, E. V., Basov, N. V., Rogachev, A. D., Cheresiz, S. V., Ivanisenko, T. V., Demenkov, P. S., Mishchenko, E. L., Khripko, O. P., Khripko, Y. I., Voevoda, S. M., Karpenko, T. N., Velichko, A. J., Voevoda, M. I., Kolchanov, N. A. & Pokrovsky, A. G., Dec 2022, In: Scientific Reports. 12, 1, 12 p., 19977.
Research output: Contribution to journal › Article › peer-review
The New Version of the ANDDigest Tool with Improved AI-Based Short Names Recognition
Ivanisenko, T. V., Demenkov, P. S., Kolchanov, N. A. & Ivanisenko, V. A., Dec 2022, In: International Journal of Molecular Sciences. 23, 23, 14934.
Research output: Contribution to journal › Article › peer-review
Chronic dust bronchitis: composition of the sputum bacterial microbiome and its association with chromosome damage in blood lymphocytes
Druzhinin, V. G., Baranova, E. D., Demenkov, P. S., Matskova, L. V., Paradnikova, S. A., Volobaev, V. P. & Larionov, A. V., 2022, In: Ecological Genetics. 20, 4, p. 325-337 13 p.
Research output: Contribution to journal › Article › peer-review
Validation of preoperative diagnosis of malignant thyroid tumors using a molecular classifier
Titov, S. E., Lukyanov, S. A., Kozorezova, E. S., Demenkov, P. S., Sergiyko, S. V., Veryaskina, Y. A., Vorobyov, S. L., Sleptsov, I. V. & Gostimsky, A. V., 2022, In: Voprosy Onkologii. 68, 6, p. 741-751 11 p.
Research output: Contribution to journal › Article › peer-review
2021
Prioritization of biological processes based on the reconstruction and analysis of associative gene networks describing the response of plants to adverse environmental factors
Demenkov, P. S., Oshchepkova, E. A., Ivanisenko, T. V. & Ivanisenko, V. A., Sept 2021, In: Vavilovskii Zhurnal Genetiki i Selektsii. 25, 5, p. 580-592 13 p., 13.
Research output: Contribution to journal › Article › peer-review
База данных симптомов заболеваний, представленных в научных публикациях PubMed, для подсистемы отложенных консультаций информационной системы Университетской клиники
Гайслер, Е. В., Деменков, П. С., Иванисенко, В. А., Иванисенко, Т. В. & Сайк, О. В., 19 Feb 2021, Роспатент - Федеральная служба по интеллектуальной собственности, Patent No. 2021620298, Priority date 5 Feb 2021, Priority No. 2021620147
Research output: Patent › Database registration
Preoperative Typing of Thyroid and Parathyroid Tumors with a Combined Molecular Classifier
Titov, S. E., Kozorezova, E. S., Demenkov, P. S., Veryaskina, Y. A., Kuznetsova, I. V., Vorobyev, S. L., Chernikov, R. A., Sleptsov, I. V., Timofeeva, N. I. & Ivanov, M. K., 11 Jan 2021, In: Cancers. 13, 2, p. 1-17 17 p., 237.
Research output: Contribution to journal › Article › peer-review
The Web Platform for Storing Biotechnologically Significant Properties of Bacterial Strains
Mukhin, A. M., Kazantsev, F. V., Klimenko, A. I., Lakhova, T. N., Demenkov, P. S. & Lashin, S. A., 2021, Parallel Computing Technologies - 16th International Conference, PaCT 2021, Proceedings. Malyshkin, V. (ed.). Springer, p. 445-450 6 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 12942 LNCS).
Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Research › peer-review
2020
Preoperative detection of malignancy in fine-needle aspiration cytology (FNAC) smears with indeterminate cytology (Bethesda III, IV) by a combined molecular classifier
Titov, S., Demenkov, P. S., Lukyanov, S. A., Sergiyko, S. V., Katanyan, G. A., Veryaskina, Y. A. & Ivanov, M. K., 1 Nov 2020, In: Journal of Clinical Pathology. 73, 11, p. 722-727 6 p.
Research output: Contribution to journal › Article › peer-review
ANDDigest: a new web-based module of ANDSystem for the search of knowledge in the scientific literature
Ivanisenko, T. V., Saik, O. V., Demenkov, P. S., Ivanisenko, N. V., Savostianov, A. N. & Ivanisenko, V. A., 14 Sept 2020, In: BMC Bioinformatics. 21, Suppl 11, p. 228 21 p., 228.
Research output: Contribution to journal › Article › peer-review
2019
Combined quantitation of HMGA2 mRNA, microRNAs, and mitochondrial-DNA content enables the identification and typing of thyroid tumors in fine-needle aspiration smears
Titov, S. E., Ivanov, M. K., Demenkov, P. S., Katanyan, G. A., Kozorezova, E. S., Malek, A. V., Veryaskina, Y. A. & Zhimulev, I. F., 28 Oct 2019, In: BMC Cancer. 19, 1, 1010.
Research output: Contribution to journal › Article › peer-review
Prioritization of genes involved in endothelial cell apoptosis by their implication in lymphedema using an analysis of associative gene networks with ANDSystem
Saik, O. V., Nimaev, V. V., Usmonov, D. B., Demenkov, P. S., Ivanisenko, T. V., Lavrik, I. N. & Ivanisenko, V. A., 13 Mar 2019, In: BMC Medical Genomics. 12, Suppl 2, p. 47 15 p., 47.
Research output: Contribution to journal › Article › peer-review
A new version of the ANDSystem tool for automatic extraction of knowledge from scientific publications with expanded functionality for reconstruction of associative gene networks by considering tissue-specific gene expression
Ivanisenko, V. A., Demenkov, P. S., Ivanisenko, T. V., Mishchenko, E. L. & Saik, O. V., 5 Feb 2019, In: BMC Bioinformatics. 20, Suppl 1, 11 p., 34.
Research output: Contribution to journal › Article › peer-review
Prioritization of potato genes involved in the formation of agronomically valuable traits using the SOLANUM TUBEROSUM knowledge base
Demenkov, P. S., Saik, O. V., Ivanisenko, T. V., Kolchanov, N. A., Kochetov, A. V. & Ivanisenko, V. A., 1 Jan 2019, In: Вавиловский журнал генетики и селекции. 23, 3, p. 312-319 8 p.
Research output: Contribution to journal › Article › peer-review
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
2017
Development of methods for automatic extraction of knowledge from texts of scientific publications for the creation of a knowledge base solanum tuberosum
Saik, O. V., Demenkov, P. S., Ivanisenko, T. V., Kolchanov, N. A. & Ivanisenko, V. A., 1 Jan 2017, In: Sel'skokhozyaistvennaya Biologiya. 52, 1, p. 63-74 12 p.
Research output: Contribution to journal › Article › peer-review

ID: 12582400

Demenkov, Pavel Sergeevich