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IMPROVE CASUAL GENE PRIORITIZATION BY PATIENT,S PHENOTYPE. IDENTIFICATION AND PARSING OF RELEVANT MENDELIAN DISEASE ARTICLES
P. 24–24.
Konstantinovskiy N., Smirnov D., Holger P.
Language:
English
In book
St. Petersburg: Федеральное государственное автономное образовательное учреждение высшего образования "Санкт-Петербургский политехнический университет Петра Великого", 2021.
Beknazarov N., , in: Parallel Computational Technologies, 19th International Conference, PCT 2025, Moscow, Russia, April 8–10, 2025, Revised Selected Papers. (CCIS, volume 2891)Vol. 2891.: Springer, 2026. P. 3–16.
This paper addresses the challenge of efficiently training Large Language Models (LLMs) on large-scale, sparse omics datasets in high-performance computing (HPC) environments. Using over 1000 BED tracks as a representative data source, we propose a method combining interval-based chunked storage, sparse matrix transformation, and parallel data loading, integrated within a PyTorch Lightning training framework. Our ...
Added: May 19, 2026
Arteaga Moreano B. D., Chervov N., Poptsova M., Scientific Reports 2026 Vol. 16 No. 1 Article 4772
Accurate prediction of protein-protein interactions (PPIs) is fundamental to understanding biological processes and disease mechanisms. While deep learning offers a powerful alternative to costly experimental methods, existing approaches often overlook critical protein-surface information and rely on simplistic feature fusion techniques, thereby limiting performance. To address this, we introduce GSMFormer-PPI, a novel multimodal framework that integrates ...
Added: February 4, 2026
David Arteaga, Poptsova M., Computational and Structural Biotechnology Journal 2026 Vol. 31 P. 82–93
Accurate predictions and large-scale identification of protein-protein interactions (PPIs) are crucial for understanding their inherent biological mechanisms and protein functions in virtually all biological processes. Nowadays, graph-based deep learning models have made significant contributions in modeling proteins with physicochemical and geometric features. However, most of these models rely on conventional graph construction methods, such as ...
Added: December 22, 2025
Budkina A., Korneenko E., Kotov I. et al., Viruses 2021 No. 10 P. 2006
According to various estimates, only a small percentage of existing viruses have been discovered, naturally much less being represented in the genomic databases. High-throughput sequencing technologies develop rapidly, empowering large-scale screening of various biological samples for the presence of pathogen-associated nucleotide sequences, but many organisms are yet to be attributed specific loci for identification. This ...
Added: September 19, 2025
KUDRYAVTSEVA A., Cancers 2023
Liver metastasis is a significant factor contributing to mortality associated with colorectal cancer. Establishing the biological mechanisms of metastasis is crucial for refining diagnostics and identifying therapeutic windows for interventions. Currently, little is known of the processes that govern the development of liver metastases, the role of the tumor microenvironment, the role of epigenetics, and ...
Added: July 1, 2025
Аксенова А. Ю., Жук А. С., Степченкова Е. И. et al., Экологическая генетика 2025 Т. 23 № 2 С. 1–14
Биоинформатика — это быстро развивающаяся дисциплина на стыке биологии, информатики и математики. Научно-технический прогресс в области биологических и биомедицинских наук за последние годы привел к стремительному росту объемов данных. Для анализа и интерпретации больших данных нужны мощные вычислительные инструменты и специалисты с глубокими знаниями в различных областях, включая молекулярную биологию, генетику, программирование и математику. В ...
Added: May 20, 2025
The COVID-19 Host Genetics Initiative .., Rakitko A., Nature 2023 Vol. 621 No. 7977 P. Е7–Е26
Investigating the role of host genetic factors in COVID-19 severity and susceptibility can inform our understanding of the underlying biological mechanisms that influence adverse outcomes and drug development 1, 2. Here we present a second updated genome-wide association study (GWAS) on COVID-19 severity and infection susceptibility to SARS-CoV-2 from the COVID-19 Host Genetic Initiative (data ...
Added: March 4, 2025
Stefan Nikolić, Ignatov D. I., Khvorykh G. et al., PeerJ Computer Science 2024 Vol. 10 Article e2454
Despite the identification of several dozen genetic loci associated with ischemic stroke (IS), the genetic bases of this disease remain largely unexplored. In this research we present the results of genome-wide association studies (GWAS) based on classical statistical testing and machine learning algorithms (logistic regression, gradient boosting on decision trees, and tabular deep learning model ...
Added: December 11, 2024
Dolgov A., Философия науки и техники 2024 № 2 С. 47–60
The article is devoted to the study of social media users’ views on genetics and genetic technologies. The study of this issue is important because the development of genetic technologies in Russia is considered one of the priority tasks, and the implementation of innovations largely depends on the attitude towards it in society. Fundamental scientific ...
Added: December 7, 2024
[б.и.], 2023.
The Workshop will be held in the Meshcheryakov Laboratory of Information Technologies (MLIT) of the Joint Institute for Nuclear Research (JINR) on July 6-8, 2022.
The workshop primarily focuses on the use of machine learning in particle astrophysics and high energy physics, but is not limited to this area. Topics of interest are various applications of ...
Added: March 12, 2024
Pavel Latyshev, Fedor Pavlov, Herbert A. et al., , in: Proceedings of 11th Moscow Conference on Computational Molecular Biology MCCMB'23.: IITP RAS, 2023.
Added: December 1, 2023
IITP RAS, 2023.
В сборнике представлены тезисы работ участников 11-ой Московской конференции по вычислительной молекулярной биологии MCCMB'23. Работы посвящены актуальным вопросам анализа аминокислотных и нуклеотидных последовательностей, структур биополимеров, молекулярной эволюции, методов высокопроизводительного секвенирования, системной биологии и биоалгоритмов. ...
Added: November 30, 2023
Cham: Springer, 2023.
Added: November 29, 2023
Dolgov A., Россия и современный мир 2023 № 2(119) С. 242–267
The article examines how genetics and genetic technologies were represented in Russian newspapers in from the 1990s through early 2020s. Using a headline search in the full-text database of Russian media, 411 publications of federal newspapers devoted to various problems and images of genetics were found. The thematic content analysis of the publications allowed us ...
Added: June 21, 2023
Alimova I., Tutubalina E., Nikolenko S. I., IEEE Access 2022 Vol. 10 P. 1432–1439
Relation extraction (RE) aims to extract relational facts from plain text, which is essential to the biomedical research field with the rapid growth of biomedical literature and generally large volumes of biomedicine-related text coming from various sources. Numerous annotated corpora and state-of-the-art models have been introduced in the past five years. However, there are no ...
Added: April 10, 2023
Grigory Andreevich Puzanov, Scientific Reports 2022 Vol. 12 No. 1 Article 14588
Clear cell renal carcinoma has been reported in many research studies as a rather heterogeneous disease. Identification of different subtypes and their molecular characteristics can help in choosing a more effective treatment and predicting a response to it. In this study, using multi-omics clustering of RNA-Seq data of patients with clear cell renal carcinoma from ...
Added: September 23, 2022