vavilovВавиловский журнал генетики и селекцииVavilov Journal of Genetics and Breeding2500-3259Institute of Cytology and Genetics of Siberian Branch of the RAS10.18699/vjgb-25-103vavilov-4880Research ArticleСИСТЕМНАЯ КОМПЬЮТЕРНАЯ БИОЛОГИЯSYSTEMS COMPUTATIONAL BIOLOGYCигнальный путь Hedgehog у человека: описание в базе знаний HH_Signal_pathway_dbHedgehog signaling in humans: the HH_Signal_pathway_db knowledge baseБухаринаТ. А.BukharinaT. A.

Новосибирск

Novosibirsk

bukharina@bionet.nsc.ruБондаренкоА. М.BondarenkoA. M.

Новосибирск

Novosibirsk

ФурманД. П.FurmanD. P.

Новосибирск

Novosibirsk

furman@bionet.nsc.ruФедеральный 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 Federation202512122025297978989Copyright © Бухарина Т.А., Бондаренко А.М., Фурман Д.П., 20252025Бухарина Т.А., Бондаренко А.М., Фурман Д.П.Bukharina T.A., Bondarenko A.M., Furman D.P.This work is licensed under a Creative Commons Attribution 4.0 License.https://vavilov.elpub.ru/jour/article/view/4880

   Стремительное развитие омиксных технологий (геномики, транскриптомики, протеомики, метаболомики) и других высокопроизводительных методов экспериментального исследования молекулярно-генетических систем и процессов привело к генерации беспрецедентно огромных объемов разнородных и сложных биологических данных. Эффективное использование этого информационного ресурса требует системных подходов к их анализу. Один из подходов состоит в создании предметно-ориентированных баз знаний/данных – репозиториев, интегрирующих информацию из множества источников, что позволяет не только хранить и структурировать распределенные по различным источникам гетерогенные данные, но и получать новые сведения о биологических системах и процессах. Критически важен системный подход и к решению фундаментальной задачи биологии – выяснению закономерностей морфогенеза. Регуляция морфогенеза осуществляется через эволюционно консервативные сигнальные пути (Hedgehog, Wnt, Notch и др.). Ключевая роль в этом процессе принадлежит пути Hedgehog (HH), поскольку в онтогенезе он начинает функционировать ранее других и детерминирует реализацию каждого этапа индивидуального развития организма: от структурирования эмбриональных зачатков, гисто- и органогенеза до поддержания тканевого гомеостаза и процесса регенерации у взрослых особей. Нами создана база знаний HH_Signal_pathway_db, в которую сведена информация о компонентах и функциях HH сигнального пути у человека. Первый релиз базы (доступен по запросу bukharina@bionet.nsc.ru) содержит информацию о входящих в него 56 генах, их белковых продуктах, сети регуляторных взаимодействий, а также об установленных связях с некоторыми патологическими состояниями человека. HH_Signal_pathway_db предоставляет исследователям инструмент для получения новых знаний о роли пути Hedgehog в норме и при патологии и возможностях применения их в области биологии развития и трансляционной медицины.

   The rapid advancement of omics technologies (genomics, transcriptomics, proteomics, metabolomics) and other high-throughput methods for experimental studies of molecular genetic systems and processes has led to the generation of an unprecedentedly vast amount of heterogeneous and complex biological data. Effective use of this information resource requires systematic approaches to its analysis. One such approach involves the creation of domain-specific knowledge/data repositories that integrate information from multiple sources. This not only enables the storage and structuring of heterogeneous data distributed across various resources but also facilitates the acquisition of new insights into biological systems and processes. A systematic approach is also critical to solving the fundamental problem of biology – clarifying the regularities of morphogenesis. Morphogenesis is regulated through evolutionarily conserved signaling pathways (Hedgehog, Wnt, Notch, etc.). The Hedgehog (HH) pathway plays a key role in this process, as it begins functioning earlier than others in ontogenesis and determines the progression of every stage of an organism’s life cycle: from structuring embryonic primordia, histo- and organogenesis, to maintaining tissue homeostasis and regeneration in adults. Our work presents HH_Signal_pathway_db, a knowledge base that integrates curated data on the molecular components and functional roles of the human Hedgehog (HH) signaling pathway. The first release of the database (available upon request at bukharina@bionet.nsc.ru) contains information on 56 genes, their protein products, the regulatory interaction network, and established associations with pathological conditions in humans. HH_Signal_pathway_db provides researchers with a tool for gaining new knowledge about the role of the Hedgehog pathway in health and disease, and its potential applications in developmental biology and translational medicine.

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