Accepted_test

Automated reconstruction and analysis of gene networks using cognitive system ANDSystem
by Ivanisenko V.A. | Demenkov P.S. | Ivanisenko T.V. | Antropova E.A. | Makarova A.L.A. | Adamovskaya A.V. | Venzel A.S. | Kolchanov N.A. | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia | Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia
Abstract ID: 98
Event: BGRS-abstracts
Sections: [Sym 2] Section “Reconstruction computational analysis and modeling of gene networks and metabolic pathways”

Cognitive computer systems are increasingly being utilized in biomedicine for reconstructing and analyzing gene networks. These systems offer a comprehensive knowledge engineering cycle, including entity recognition, relationship establishment, knowledge integration, and representation as semantic networks or knowledge graphs. They also provide tools for data analysis and interpretation, such as gene prioritization and identification of overrepresented biological processes or diseases. ANDSystem, a cognitive software and information system, considers 12 types of objects and extracts knowledge about various interactions from scientific texts. The ANDSystem knowledge base, created through automatic analysis of PubMed abstracts, PMC full-text articles, and factual databases, contains formalized knowledge about more than 50 million interactions between molecular-genetic objects of different organisms, surpassing similar systems worldwide in terms of the number of considered relationship and object types. ANDSystem has been applied to study molecular genetic mechanisms of pathogen-host interaction, reconstruct signaling pathways for cellular biological processes regulated by viral proteins, prioritize pharmacological targets for liver cancer therapy, investigate the regulatory role of SARS-CoV-2 non-structural proteins in metabolic process disruption in COVID-19 patients, and analyze blood plasma metabolomic screening data from patients with postoperative delirium to reconstruct molecular genetic mechanisms of sphingolipid metabolism disorders. In conclusion, ANDSystem is a powerful cognitive system with a unique knowledge base, successfully applied to solve various problems in biomedicine.