vavilovВавиловский журнал генетики и селекцииVavilov Journal of Genetics and Breeding2500-3259Institute of Cytology and Genetics of Siberian Branch of the RAS10.18699/vjgb-25-106vavilov-4883Research ArticleСИСТЕМНАЯ КОМПЬЮТЕРНАЯ БИОЛОГИЯSYSTEMS COMPUTATIONAL BIOLOGYГенная сеть и база знаний по терморегуляции организма человекаThe gene network and knowledge base on human thermoregulationhttps://orcid.org/0000-0002-8588-6511ИгнатьеваЕ. В.IgnatievaE. V.

Новосибирск

Novosibirsk

eignat@bionet.nsc.ruhttps://orcid.org/0000-0001-9433-8341ДеменковП. С.DemenkovP. S.

Новосибирск

Novosibirsk

https://orcid.org/0000-0003-4359-6089БогомоловА. Г.BogomolovA. G.

Новосибирск

Novosibirsk

https://orcid.org/0000-0002-4369-356XИвановР. А.IvanovR. A.

Новосибирск

Novosibirsk

https://orcid.org/0000-0003-3138-381XЛашинС. А.LashinS. A.

Новосибирск

Novosibirsk

МихайловаА. Д.MikhailovaA. D.

Новосибирск

Novosibirsk

АлексееваА. Е.AlekseevaA. E.

Новосибирск

Novosibirsk

https://orcid.org/0000-0002-1947-5554ЮдинН. С.YudinN. S.

Новосибирск

Novosibirsk

Федеральный исследовательский центр Институт цитологии и генетики Сибирского отделения Российской академии наукРоссияInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesRussian FederationФедеральный исследовательский центр Институт цитологии и генетики Сибирского отделения Российской академии наук; Новосибирский национальный исследовательский государственный университетРоссияInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences; Novosibirsk State UniversityRussian FederationНовосибирский национальный исследовательский государственный университетРоссияNovosibirsk State UniversityRussian Federation20251212202529710091019Copyright © Игнатьева Е.В., Деменков П.С., Богомолов А.Г., Иванов Р.А., Лашин С.А., Михайлова А.Д., Алексеева А.Е., Юдин Н.С., 20252025Игнатьева Е.В., Деменков П.С., Богомолов А.Г., Иванов Р.А., Лашин С.А., Михайлова А.Д., Алексеева А.Е., Юдин Н.С.Ignatieva E.V., Demenkov P.S., Bogomolov A.G., Ivanov R.A., Lashin S.A., Mikhailova A.D., Alekseeva A.E., Yudin N.S.This work is licensed under a Creative Commons Attribution 4.0 License.https://vavilov.elpub.ru/jour/article/view/4883

   Реконструкция и анализ генных сетей, регулирующих биологические процессы, – один из эффективных подходов к исследованию сложных систем обеспечения жизнедеятельности организмов. Терморегуляция – важ­ное эволюционное приобретение человека и других теплокровных животных. Терморегуляция осуществляется при участии многих физиологических систем организма (нервной, сердечно­-сосудистой, эндокринной, дыхательной, мышечной и т. д.), что способствует поддержанию относительно постоянной температуры тела в условиях колебания температуры окружающей среды.

   Цель работы – компьютерная реконструкция генной сети терморегуляции че­ловека и представление полученных результатов в соответствующей базе знаний Termo_Reg_Human 1.0.

   Генная сеть реконструирована с использованием программно­-информационной системы ANDSystem, предназначенной для автоматизированного извлечения знаний и фактов из текстов научных публикаций и баз данных биомедицинской направленности, основанной на методах машинного обучения и искусственного интеллекта. База знаний Termo_Reg_Human 1.0 (https://www.sysbio.ru/ThermoReg_Human/) содержит информацию о генной сети терморегуляции человека, включая описание 469 генов, 473 белков и 265 микроРНК, значимых для ее функционирования; взаимодействиях между этими объектами, а также эволюционные характеристики генов. С использованием программного инструмента AND-Visio (модуля системы AND-System) проведена приоритизация каждого гена, белка и микроРНК, участвующих в терморегуляции организма человека по их функциональной нагруженности – количеству связей с другими объектами реконструированной генной сети. Установлено, что к числу ключевых объектов, имеющих наи­большее количество функциональных связей в генной сети терморегуляции человека, относятся гены UCP1, VEGFA, PPARG, DDIT3, белки STAT3, JUN, VEGFA, TLR4, TNFA и микроРНК hsa­mir­335 и hsa­mir­26b. Обнаружено обогащение генной сети терморегуляции генами, предковые варианты которых сформировались на эволюционных этапах по­явления одноклеточных организмов и дивергенции позвоночных.

   Reconstruction and analysis of gene networks regulating biological processes are among the modern methodo­logical approaches for studying complex biological systems that ensure the vital activity of organisms. Thermoregulation is an important evolutionary acquisition of warm­blooded animals. Multiple physiological systems (nervous, cardiovas­ cular, endocrine, respiratory, muscular, etc.) are involved in this process, maintaining stable body temperature despite changes in ambient temperature.

   This study aims to perform a computer reconstruction of the human thermoregulation gene network and present the results in the Termo_Reg_Human 1.0 knowledge base.

   The gene network was reconstructed using the ANDSystem software and information system, designed for the automated extraction of knowledge and facts from scientific publications and biomedical databases based on machine learning and artificial intelligence methods. The Termo_Reg_Human 1.0 knowledge base (https://www.sysbio.ru/ThermoReg_Human/) contains information about the hu­man thermoregulation gene network, including a description of 469 genes, 473 proteins, and 265 microRNAs important for its functioning, interactions between these objects, and the evolutionary characteristics of the genes. Using the AND-Visio software tool (a module of AND-System), each gene, protein, and microRNA involved in the thermoregulation of the hu­man body was prioritized according to its functional significance, i. e., the number of interactions with other objects in the reconstructed gene network. It was found that the key objects with the largest number of functional interactions in the human thermoregulation gene network included the UCP1, VEGFA, PPARG and DDIT3 genes; STAT3, JUN, VEGFA, TLR4 and TNFA proteins; and the microRNAs hsa­mir­335 and hsa­mir­26b. We revealed that the set of 469 human genes from the network was enriched with genes whose ancestral forms originated at an early evolutionary stage (Unicellular organisms, the root of the phylostratigraphic tree) and at the stage of Vertebrata divergence.

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The authors declare that there are no conflicts of interest present.