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Estimating the optimal linear combination of predictors using spherically constrained optimization
BACKGROUND: In the context of a binary classification problem, the optimal linear combination of continuous predictors can be estimated by maximizing the area under the receiver operating characteristic curve. For ordinal responses, the optimal predictor combination can similarly be obtained by maxi...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9583504/ https://www.ncbi.nlm.nih.gov/pubmed/36261805 http://dx.doi.org/10.1186/s12859-022-04953-y |
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author | Das, Priyam De, Debsurya Maiti, Raju Kamal, Mona Hutcheson, Katherine A. Fuller, Clifton D. Chakraborty, Bibhas Peterson, Christine B. |
author_facet | Das, Priyam De, Debsurya Maiti, Raju Kamal, Mona Hutcheson, Katherine A. Fuller, Clifton D. Chakraborty, Bibhas Peterson, Christine B. |
author_sort | Das, Priyam |
collection | PubMed |
description | BACKGROUND: In the context of a binary classification problem, the optimal linear combination of continuous predictors can be estimated by maximizing the area under the receiver operating characteristic curve. For ordinal responses, the optimal predictor combination can similarly be obtained by maximization of the hypervolume under the manifold (HUM). Since the empirical HUM is discontinuous, non-differentiable, and possibly multi-modal, solving this maximization problem requires a global optimization technique. Estimation of the optimal coefficient vector using existing global optimization techniques is computationally expensive, becoming prohibitive as the number of predictors and the number of outcome categories increases. RESULTS: We propose an efficient derivative-free black-box optimization technique based on pattern search to solve this problem, which we refer to as Spherically Constrained Optimization Routine (SCOR). Through extensive simulation studies, we demonstrate that the proposed method achieves better performance than existing methods including the step-down algorithm. Finally, we illustrate the proposed method to predict the severity of swallowing difficulty after radiation therapy for oropharyngeal cancer based on radiation dose to various structures in the head and neck. CONCLUSIONS: Our proposed method addresses an important challenge in combining multiple biomarkers to predict an ordinal outcome. This problem is particularly relevant to medical research, where it may be of interest to diagnose a disease with various stages of progression or a toxicity with multiple grades of severity. We provide the implementation of our proposed SCOR method as an R package, available online at https://CRAN.R-project.org/package=SCOR. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12859-022-04953-y. |
format | Online Article Text |
id | pubmed-9583504 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-95835042022-10-21 Estimating the optimal linear combination of predictors using spherically constrained optimization Das, Priyam De, Debsurya Maiti, Raju Kamal, Mona Hutcheson, Katherine A. Fuller, Clifton D. Chakraborty, Bibhas Peterson, Christine B. BMC Bioinformatics Software BACKGROUND: In the context of a binary classification problem, the optimal linear combination of continuous predictors can be estimated by maximizing the area under the receiver operating characteristic curve. For ordinal responses, the optimal predictor combination can similarly be obtained by maximization of the hypervolume under the manifold (HUM). Since the empirical HUM is discontinuous, non-differentiable, and possibly multi-modal, solving this maximization problem requires a global optimization technique. Estimation of the optimal coefficient vector using existing global optimization techniques is computationally expensive, becoming prohibitive as the number of predictors and the number of outcome categories increases. RESULTS: We propose an efficient derivative-free black-box optimization technique based on pattern search to solve this problem, which we refer to as Spherically Constrained Optimization Routine (SCOR). Through extensive simulation studies, we demonstrate that the proposed method achieves better performance than existing methods including the step-down algorithm. Finally, we illustrate the proposed method to predict the severity of swallowing difficulty after radiation therapy for oropharyngeal cancer based on radiation dose to various structures in the head and neck. CONCLUSIONS: Our proposed method addresses an important challenge in combining multiple biomarkers to predict an ordinal outcome. This problem is particularly relevant to medical research, where it may be of interest to diagnose a disease with various stages of progression or a toxicity with multiple grades of severity. We provide the implementation of our proposed SCOR method as an R package, available online at https://CRAN.R-project.org/package=SCOR. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12859-022-04953-y. BioMed Central 2022-10-19 /pmc/articles/PMC9583504/ /pubmed/36261805 http://dx.doi.org/10.1186/s12859-022-04953-y Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Software Das, Priyam De, Debsurya Maiti, Raju Kamal, Mona Hutcheson, Katherine A. Fuller, Clifton D. Chakraborty, Bibhas Peterson, Christine B. Estimating the optimal linear combination of predictors using spherically constrained optimization |
title | Estimating the optimal linear combination of predictors using spherically constrained optimization |
title_full | Estimating the optimal linear combination of predictors using spherically constrained optimization |
title_fullStr | Estimating the optimal linear combination of predictors using spherically constrained optimization |
title_full_unstemmed | Estimating the optimal linear combination of predictors using spherically constrained optimization |
title_short | Estimating the optimal linear combination of predictors using spherically constrained optimization |
title_sort | estimating the optimal linear combination of predictors using spherically constrained optimization |
topic | Software |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9583504/ https://www.ncbi.nlm.nih.gov/pubmed/36261805 http://dx.doi.org/10.1186/s12859-022-04953-y |
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