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Interpretable Feature Generation in ECG Using a Variational Autoencoder
Frontiers in Genetics. 2021. Article 638191.
We propose a method for generating an electrocardiogram (ECG) signal for one cardiac cycle using a variational autoencoder. Our goal was to encode the original ECG signal using as few features as possible. Using this method we extracted a vector of new 25 features, which in many cases can be interpreted. The generated ECG has quite natural appearance. The low value of the Maximum Mean Discrepancy metric, 3.83 × 10−3, indicates good quality of ECG generation too. The extracted new features will help to improve the quality of automatic diagnostics of cardiovascular diseases. Generating new synthetic ECGs will allow us to solve the issue of the lack of labeled ECG for using them in supervised learning.
Karpychev V., Balatskaya A., Utyashev N. et al., Frontiers in Human Neuroscience 2022 No. 16 Article 984306
High-frequency oscillations (HFO) are a promising biomarker for the identification of epileptogenic tissue. While HFO rates have been shown to predict seizure outcome, it is not yet clear whether their morphological features might improve this prediction. We validated HFO rates against seizure outcome and delineated the distribution of HFO morphological features. We collected stereo-EEG recordings ...
Added: October 1, 2022
Polykovskiy D., Zhebrak A., Sanchez-Lengeling B. et al., Frontiers in Pharmacology 2020 Vol. 11 P. 1-10
Generative models are becoming a tool of choice for exploring the molecular space. These models learn on a large training dataset and produce novel molecular structures with similar properties. Generated structures can be utilized for virtual screening or training semi-supervized predictive models in the downstream tasks. While there are plenty of generative models, it is ...
Added: April 21, 2021
Granata I., Manzo M., Kusumastuti A. et al., Current Medicinal Chemistry 2021 Vol. 28 No. 32 P. 6619-6653
Purpose: Systems biology and network modeling represent, nowadays, the hallmark approaches for the development of predictive and targeted-treatment based precision medicine. The study of health and disease as properties of the human body system allows the understanding of the genotype-phenotype relationship through the definition of molecular interactions and dependencies. In this scenario, metabolism plays a ...
Added: August 25, 2021
Petrosyan A., Voskoboynikov A., Sukhinin D. et al., Journal of Neural Engineering 2022 Vol. 19 No. 6 Article 066016
Objective. Speech decoding, one of the most intriguing brain-computer interface applications, opens up plentiful opportunities from rehabilitation of patients to direct and seamless communication between human species. Typical solutions rely on invasive recordings with a large number of distributed electrodes implanted through craniotomy. Here we explored the possibility of creating speech prosthesis in a minimally ...
Added: December 9, 2022
Gromov V., Zvorykina E., Beschastnov Y. et al., Working papers by Cornell University. Series math "arxiv.org" 2023 Article 14399
The paper explores mathematical methods that differentiate regular and chaotic time series, specifically for identifying pathological fistulas. It proposes a noise-resistant method for classifying responding rows of normally and pathologically functioning fistulas. This approach is grounded in the hypothesis that laminar blood flow signifies normal function, while turbulent flow indicates pathology. The study explores two ...
Added: September 27, 2023
Aleksandrova E., Герри К. Д., Kind P. et al., Здравоохранение Российской Федерации 2018 Т. 62 № 6 С. 295-303
Introduction. The concept of health-related quality of life as a key factor in patient-doctor interactions is an important basis for making managerial and medical decisions in many foreign health systems. In Russia, the concept of health-related quality of life is in its infancy: it is required the theoretical, methodological and scientific-practical foundations development.
Aims and objectives. ...
Added: February 21, 2019
Rebrova O., Российская ринология 2018 Т. 26 № 1 С. 65-68
Description of the statistical analysis of the data contained in original articles. Typical mistakes ...
Added: October 2, 2018
Belavin V., Ustyuzhanin A., Широбоков С. К. et al., Proceedings of Machine Learning Research 2020 P. 1-9
We propose a novel method for gradient-based optimization of black-box simulators using differentiable local surrogate models. In fields such as physics and engineering, many processes are modeled with non-differentiable simulators with intractable likelihoods. Optimization of these forward models is particularly challenging, especially when the simulator is stochastic. To address such cases, we introduce the use ...
Added: October 31, 2019
Hollandi R., Moshkov N., Paavolainen L. et al., Trends in Cell Biology 2022
Single nucleus segmentation is a frequent challenge of microscopy image processing, since it is the first step of many quantitative data analysis pipelines. The quality of tracking single cells, extracting features or classifying cellular phenotypes strongly depends on segmentation accuracy. Worldwide competitions have been held, aiming to improve segmentation, and recent years have definitely brought ...
Added: January 21, 2022
Lomov I., Lyubimov M., Makarov I. et al., Journal of Industrial Information Integration 2021 Vol. 23 Article 100216
Automated early process fault detection and prediction remains a challenging problem in industrial processes. Traditionally it has been done by multivariate statistical analysis of sensor readings and, more recently, with the help of machine learning methods. The quality of machine learning models strongly depends on feature engineering, that in turn heavily relies on expertise of ...
Added: March 21, 2021
Umerenkov D., Herbert A., Konovalov Dmitrii et al., Life Science Alliance 2023 Vol. 6 No. 7 Article e202301962
Identifying roles for Z-DNA remains challenging given their dynamic nature. Here, we perform genome-wide interrogation with the DNABERT transformer algorithm trained on experimentally identified Z-DNA forming sequences (Z-flipons). The algorithm yields large performance enhancements (F1 = 0.83) over existing approaches and implements computational mutagenesis to assess the effects of base substitution on Z-DNA formation. We ...
Added: June 9, 2023
German A. Ashniev, Sernova N., Shevkoplias A. et al., BMC Genomics 2022 Vol. 23 Article 558
The histidine metabolism and transport (his) genes are controlled by a variety of RNA-dependent regulatory systems among diverse taxonomic groups of bacteria including T-box riboswitches in Firmicutes and Actinobacteria and RNA attenuators in Proteobacteria. Using a comparative genomic approach, we previously identified a novel DNA-binding transcription factor (named HisR) that controls the histidine metabolism genes ...
Added: January 31, 2023
Tutubalina E., Алимова И. С., Мифтахутдинов З. et al., Bioinformatics 2021 Vol. 37 No. 2 P. 243-249
Drugs and diseases play a central role in many areas of biomedical research and healthcare. Aggregating knowledge about these entities across a broader range of domains and languages is critical for information extraction (IE) applications. To facilitate text mining methods for analysis and comparison of patient’s health conditions and adverse drug reactions reported on the ...
Added: January 13, 2021
Генов П. Г., Тимербаев В. Х., Гринь А. А. et al., Нейрохирургия 2017 № 1 С. 45-53
Objective: to determine the influence of perioperative analgesia methods on the incidence of « failed back surgery syndrome» after intervertebral discal hernia removal. Material and methods: This prospective study was conducted from 2010 till 2013 and included 129 patients who underwent lumbar discectomy regarding intervertebral discal hernia. Patients of group GA+R (n=20) were operated on ...
Added: October 2, 2018
Jaaskelainen I., Sams M., Glerean E. et al., Neuroimage 2021 Vol. 224 Article 117445
Using movies and narratives as naturalistic stimuli in human neuroimaging studies has yielded significant ad- vances in understanding of cognitive and emotional functions. The relevant literature was reviewed, with em- phasis on how the use of naturalistic stimuli has helped advance scientific understanding of human memory, attention, language, emotions, and social cognition in ways that ...
Added: March 10, 2021
Kasianova K., Kelbert M., Mozgunov P., Biometrical Journal 2023 P. 1-19
Theoretical-information approach applied to the clinical trial designs appeared to bring several advantages when tackling a problem of finding a balance between power and expected number of successes (ENS). In particular, it was shown that the built-in parameter of the weight function allows finding the desired trade-off between the statistical power and number of treated ...
Added: October 13, 2023
Popkov Y., Dubnov Y. A., Popkov A. Y., Automation and Remote Control 2018 Vol. 79 No. 11 P. 2038-2051
The direct and inverse projections (DIP) method was proposed to reduce the feature space to the given dimensions oriented to the problems of randomized machine learning and based on the procedure of “direct” and “inverse” design. The “projector” matrices are determined by maximizing the relative entropy. It is suggested to estimate the information losses by ...
Added: February 12, 2019
Yasnitsky L., Dumler A., Cherepanov F. et al., Expert Review of Precision Medicine and Drug Development 2021 Vol. November 2021 P. 1-9
Objectives: Currently, there is an active use of neural networks in various areas of human activity. Problems of recognition, diagnostics, optimization, forecasting, control, as well as obtaining new scientific knowledge are successfully solved. However, in medicine, due to the particular complexity of the human body, neural networks are mainly used only for solving the simplest ...
Added: January 23, 2022
Думлер А. А., Черепанов Ф. М., Терапия 2018 № 1(19) С. 109-118
This article is devoted to the methodological issues of the application of artificial intelligence techniques in preventive medicine. We showed a specific example of the neural network application allows not only to diagnose cardiovascular diseases, but also on a quantitative basis to predict their emergence and development in future periods of life. This allows you ...
Added: January 9, 2019
Yasnitsky L., Прикладная математика и вопросы управления 2018 № 4 С. 99-130
The article is based on the annual Perm All-Russian scientific and practical conference "Artificial intelligence in solving urgent social and economic problems of the XXI century" (http://www.permai.ru/files/26.05.2018.pdf). It is also a brief overview of the results of the Perm branch of the Scientific Council of the Russian Academy of Sciences on the methodology of artificial ...
Added: November 15, 2019
Терещенко С. Н., Perov A., Осипов А. Л., Siberian Journal of Life Sciences and Agriculture 2021 Т. 13 № 1 С. 144-155
Background.
Development of a convolutional neural network model for detecting cassava diseases from a mobile phone photo.
Materials and methods. The material for the research was taken images with various types of cassava diseases, published in open access of the Kaggle platform.
Research methods: theory of design and development of information systems, programming, methods of augmentation and extension ...
Added: November 17, 2021
Стукалова О. В., Серова Н. С., Chepovskiy A. et al., Russian Electronic Journal of Radiology 2021 Т. 11 № 2 С. 32-45
В статье представлен обзор современной отечественной и зарубежной литературы, по-священной различным подходам к созданию моделей сердца, от первых очень простых компьютерных симуляций электрофизиологии до современных, основанных на магнитно-резонансной
томографии с контрастированием, с отражением не только анатомии, но и структуры миокар-да. Также в данном обзоре обсуждается вопрос практического применения данных технологий
для повышения эффективности сердечной ресинхронизирующей терапии, аблации ...
Added: August 8, 2021
Nadezhdina E. Y., Rebrova O., Ivaschenko O. V. et al., Pituitary 2019 Vol. 22 No. 6 P. 574-580
Background Some laboratory and clinical features are associated with a probability of recurrence after transnasal adenomectomy for Cushing disease (CD). However, there is no consensus on a set of predictors. Rules for prediction of recurrence were not proposed earlier.
Aim To develop prediction model of recurrence/remission after successful neurosurgical treatment for CD.
Methods Retrospective single-site comparative study included 349 ...
Added: October 23, 2019
Степанов Г. А., Русских С.В., Астасидис Б. А. et al., Вестник Российской академии медицинских наук 2008 № 8 С. 29-34
This work is been based upon the experience of performing 100 reconstructive microsurgical operations with transplantation of combined vascular-neural autografts, in 24 cases - with introduction cellular material into zone of transplantation. The complex approach aimed to creating optimal conditions for the functional regeneration of the spinal cord (SC), including neurosurgical methods restoring anatomical integrity ...
Added: November 16, 2021