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Traditional mice behavior annotation methods, including manual and semi-automated approaches, are limited by subjectivity and time constraints. To overcome these limitations, our study employs the YOLO neural network for precise mice tracking and composite RGB frames for behavioral scoring. Our model, trained on over 10,000 frames, accurately classifies sitting, running, and grooming behaviors. Additionally, we provide statistical metrics and data visualization tools. We further combined AI-powered behavior labeling to examine hippocampal neuronal activity using fluorescence microscopy. To analyze neuronal circuit dynamics, we utilized a manifold analysis approach, revealing distinct functional patterns corresponding to transgenic 5xFAD Alzheimer\u2019s model mice. This open-source software enhances the accuracy and efficiency of behavioral and neural data interpretation, advancing neuroscience research.<\/jats:p>","DOI":"10.3390\/ijms26157180","type":"journal-article","created":{"date-parts":[[2025,7,25]],"date-time":"2025-07-25T09:35:11Z","timestamp":1753436111000},"page":"7180","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["AI-Powered Mice Behavior Tracking and Its Application for Neuronal Manifold Analysis Based on Hippocampal Ensemble Activity in an Alzheimer\u2019s Disease Mice Model"],"prefix":"10.3390","volume":"26","author":[{"given":"Evgenii","family":"Gerasimov","sequence":"first","affiliation":[{"name":"Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"},{"name":"Laboratory of Biomedical Imaging and Data Analysis, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"},{"name":"Laboratory of Molecular Neurobiology, Pavlov Institute of Physiology, Russian Academy of Sciences, St. Petersburg 199034, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Viacheslav","family":"Karasev","sequence":"additional","affiliation":[{"name":"Laboratory of Biomedical Imaging and Data Analysis, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sergey","family":"Umnov","sequence":"additional","affiliation":[{"name":"Laboratory of Biomedical Imaging and Data Analysis, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4221-5072","authenticated-orcid":false,"given":"Viacheslav","family":"Chukanov","sequence":"additional","affiliation":[{"name":"Laboratory of Biomedical Imaging and Data Analysis, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ekaterina","family":"Pchitskaya","sequence":"additional","affiliation":[{"name":"Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"},{"name":"Laboratory of Biomedical Imaging and Data Analysis, Peter the Great St. Petersburg Polytechnic University, St. Petersburg 194021, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,7,25]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"104","DOI":"10.1007\/s13534-016-0235-1","article-title":"A Review of Electrodes for the Electrical Brain Signal Recording","volume":"6","author":"Im","year":"2016","journal-title":"Biomed. 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