Development of feline infectious peritonitis diagnosis system by using CatBoost algorithm

IF 2.6 4区 生物学 Q2 BIOLOGY Computational Biology and Chemistry Pub Date : 2024-09-26 DOI:10.1016/j.compbiolchem.2024.108227
Ping-Huan Kuo , Yu-Hsiang Li , Her-Terng Yau
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Abstract

This study employed machine learning techniques to predict the rate of feline infectious peritonitis (FIP) diagnoses, with a specific focus on mutations in the spike protein gene of the feline coronavirus (FCoV). FIP is a fatal viral disease affecting the peritoneum of cats and is primarily caused by mutations in FCoV. Its diagnosis largely relies on evaluations of various biomarkers and clinical symptoms. The current analysis of FCoV spike protein gene mutations exhibits certain limitations. To address this problem, the present study employed a large dataset—comprising information on FCoV copy numbers, spike protein mutation outcomes, and related clinical data—and used machine learning models to analyze the association between spike protein gene mutations and FIP diagnosis. Various algorithms were used to establish highly accurate predictive models, namely logistic regression, random forest, decision tree, neural network, support vector machine, gradient boosting tree, and categorical boosting (CatBoost) algorithms. The model obtained using the CatBoost algorithm was discovered to have accuracy of 0.9541. Accordingly, a highly accurate predictive model was developed to enable early diagnosis of FIP and improve the rate of survival in cats. The application of machine learning technology in this study yielded research findings that provide veterinarians with effective tools for managing and preventing FIP, a painful and deadly disease for cats. This study is a pioneering work in the systematic application of multiple machine learning models to the prediction of FIP and comparison of performance results to improve diagnostic accuracy and efficiency. This study is the first of its kind in the field of FIP.
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利用 CatBoost 算法开发猫传染性腹膜炎诊断系统。
本研究采用机器学习技术预测猫传染性腹膜炎(FIP)的诊断率,重点关注猫冠状病毒(FCoV)尖峰蛋白基因的突变。FIP 是一种影响猫腹膜的致命病毒性疾病,主要由 FCoV 基因突变引起。其诊断主要依赖于对各种生物标志物和临床症状的评估。目前对 FCoV 尖峰蛋白基因突变的分析存在一定的局限性。为了解决这个问题,本研究采用了一个大型数据集,其中包括 FCoV 拷贝数、尖峰蛋白突变结果和相关临床数据等信息,并使用机器学习模型分析尖峰蛋白基因突变与 FIP 诊断之间的关联。这些模型包括逻辑回归、随机森林、决策树、神经网络、支持向量机、梯度提升树和分类提升(CatBoost)算法。使用 CatBoost 算法得到的模型准确率为 0.9541。因此,我们开发出了一个高精确度的预测模型,以实现 FIP 的早期诊断并提高猫的存活率。在这项研究中应用机器学习技术所取得的研究成果,为兽医提供了管理和预防 FIP(猫的一种痛苦而致命的疾病)的有效工具。这项研究开创性地将多种机器学习模型系统地应用于 FIP 的预测,并对性能结果进行比较,以提高诊断的准确性和效率。这项研究在 FIP 领域尚属首次。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Computational Biology and Chemistry
Computational Biology and Chemistry 生物-计算机:跨学科应用
CiteScore
6.10
自引率
3.20%
发文量
142
审稿时长
24 days
期刊介绍: Computational Biology and Chemistry publishes original research papers and review articles in all areas of computational life sciences. High quality research contributions with a major computational component in the areas of nucleic acid and protein sequence research, molecular evolution, molecular genetics (functional genomics and proteomics), theory and practice of either biology-specific or chemical-biology-specific modeling, and structural biology of nucleic acids and proteins are particularly welcome. Exceptionally high quality research work in bioinformatics, systems biology, ecology, computational pharmacology, metabolism, biomedical engineering, epidemiology, and statistical genetics will also be considered. Given their inherent uncertainty, protein modeling and molecular docking studies should be thoroughly validated. In the absence of experimental results for validation, the use of molecular dynamics simulations along with detailed free energy calculations, for example, should be used as complementary techniques to support the major conclusions. Submissions of premature modeling exercises without additional biological insights will not be considered. Review articles will generally be commissioned by the editors and should not be submitted to the journal without explicit invitation. However prospective authors are welcome to send a brief (one to three pages) synopsis, which will be evaluated by the editors.
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