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      Predicting visual field global and local parameters from OCT measurements using explainable machine learning

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          Abstract

          Glaucoma is characterised by progressive vision loss due to retinal ganglion cell deterioration, leading to gradual visual field (VF) impairment. The standard VF test may be impractical in some cases, where optical coherence tomography (OCT) can offer predictive insights into VF for multimodal diagnoses. However, predicting VF measures from OCT data remains challenging. To address this, five regression models were developed to predict VF measures from OCT, Shapley Additive exPlanations (SHAP) analysis was performed for interpretability, and a clinical software tool called OCT to VF Predictor was developed. To evaluate the models, a total of 268 glaucomatous eyes (86 early, 72 moderate, 110 advanced) and 226 normal eyes were included. The machine learning models outperformed recent OCT-based VF prediction deep learning studies, with correlation coefficients of 0.76, 0.80 and 0.76 for mean deviation, visual field index and pattern standard deviation, respectively. Introducing the pointwise normalisation and step-size concept, a mean absolute error of 2.51 dB was obtained in pointwise sensitivity prediction, and the grayscale prediction model yielded a mean structural similarity index of 77%. The SHAP-based analysis provided critical insights into the most relevant features for glaucoma diagnosis, showing promise in assisting eye care practitioners through an explainable AI tool.

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          SMOTE: Synthetic Minority Over-sampling Technique

          An approach to the construction of classifiers from imbalanced datasets is described. A dataset is imbalanced if the classification categories are not approximately equally represented. Often real-world data sets are predominately composed of ``normal'' examples with only a small percentage of ``abnormal'' or ``interesting'' examples. It is also the case that the cost of misclassifying an abnormal (interesting) example as a normal example is often much higher than the cost of the reverse error. Under-sampling of the majority (normal) class has been proposed as a good means of increasing the sensitivity of a classifier to the minority class. This paper shows that a combination of our method of over-sampling the minority (abnormal) class and under-sampling the majority (normal) class can achieve better classifier performance (in ROC space) than only under-sampling the majority class. This paper also shows that a combination of our method of over-sampling the minority class and under-sampling the majority class can achieve better classifier performance (in ROC space) than varying the loss ratios in Ripper or class priors in Naive Bayes. Our method of over-sampling the minority class involves creating synthetic minority class examples. Experiments are performed using C4.5, Ripper and a Naive Bayes classifier. The method is evaluated using the area under the Receiver Operating Characteristic curve (AUC) and the ROC convex hull strategy.
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            Greedy function approximation: A gradient boosting machine.

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              • Article: found

              Multiple imputation using chained equations: Issues and guidance for practice

              Multiple imputation by chained equations is a flexible and practical approach to handling missing data. We describe the principles of the method and show how to impute categorical and quantitative variables, including skewed variables. We give guidance on how to specify the imputation model and how many imputations are needed. We describe the practical analysis of multiply imputed data, including model building and model checking. We stress the limitations of the method and discuss the possible pitfalls. We illustrate the ideas using a data set in mental health, giving Stata code fragments. 2010 John Wiley & Sons, Ltd.

                Author and article information

                Contributors
                md_mahmudul.hasan@unsw.edu.au
                Journal
                Sci Rep
                Sci Rep
                Scientific Reports
                Nature Publishing Group UK (London )
                2045-2322
                16 February 2025
                16 February 2025
                2025
                : 15
                : 5685
                Affiliations
                [1 ]School of Computer Science and Engineering, University of New South Wales, ( https://ror.org/03r8z3t63) Sydney, NSW 2052 Australia
                [2 ]School of Optometry and Vision Science, University of New South Wales, ( https://ror.org/03r8z3t63) Sydney, NSW Australia
                [3 ]Centre for Eye Health, University of New South Wales, ( https://ror.org/03r8z3t63) Sydney, NSW Australia
                [4 ]Faculty of Medicine and Health, University of Sydney, ( https://ror.org/0384j8v12) Camperdown, NSW Australia
                [5 ]School of Medicine (Optometry), Deakin University, ( https://ror.org/02czsnj07) Waurn Ponds, VIC Australia
                [6 ]University of Houston College of Optometry, University of Houston, ( https://ror.org/048sx0r50) Houston, TX USA
                Article
                89557
                10.1038/s41598-025-89557-1
                11830782
                39956834
                d041e08e-924d-4d28-8ea2-e7ffcfcda55c
                © The Author(s) 2025

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 3 October 2024
                : 6 February 2025
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100001773, University of New South Wales;
                Funded by: FundRef http://dx.doi.org/10.13039/501100000925, National Health and Medical Research Council;
                Award ID: 1186915
                Categories
                Article
                Custom metadata
                © Springer Nature Limited 2025

                Uncategorized
                24-2 test grid,optical coherence tomography,glaucoma,explainable machine learning,shap analysis,perimetry,visual fields,optic nerve diseases,biomedical engineering

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