{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,19]],"date-time":"2026-01-19T03:37:18Z","timestamp":1768793838766,"version":"3.49.0"},"reference-count":34,"publisher":"Oxford University Press (OUP)","issue":"13","license":[{"start":{"date-parts":[[2018,2,19]],"date-time":"2018-02-19T00:00:00Z","timestamp":1518998400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"DOI":"10.13039\/100007225","name":"Ministry of Science and Technology","doi-asserted-by":"publisher","award":["105-2221-E-151 -053 -MY2"],"award-info":[{"award-number":["105-2221-E-151 -053 -MY2"]}],"id":[{"id":"10.13039\/100007225","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007225","name":"Ministry of Science and Technology","doi-asserted-by":"publisher","award":["106-2811-E-151-002-"],"award-info":[{"award-number":["106-2811-E-151-002-"]}],"id":[{"id":"10.13039\/100007225","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Single-nucleotide polymorphism (SNP)\u2013SNP interactions (SSIs) are popular markers for understanding disease susceptibility. Multifactor dimensionality reduction (MDR) can successfully detect considerable SSIs. Currently, MDR-based methods mainly adopt a single-objective function (a single measure based on contingency tables) to detect SSIs. However, generally, a single-measure function might not yield favorable results due to potential model preferences and disease complexities.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Approach<\/jats:title>\n                  <jats:p>This study proposes a multiobjective MDR (MOMDR) method that is based on a contingency table of MDR as an objective function. MOMDR considers the incorporated measures, including correct classification and likelihood rates, to detect SSIs and adopts set theory to predict the most favorable SSIs with cross-validation consistency. MOMDR enables simultaneously using multiple measures to determine potential SSIs.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Three simulation studies were conducted to compare the detection success rates of MOMDR and single-objective MDR (SOMDR), revealing that MOMDR had higher detection success rates than SOMDR. Furthermore, the Wellcome Trust Case Control Consortium dataset was analyzed by MOMDR to detect SSIs associated with coronary artery disease.<\/jats:p>\n                  <jats:p>Availability and implementation: MOMDR is freely available at https:\/\/goo.gl\/M8dpDg<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty076","type":"journal-article","created":{"date-parts":[[2018,2,16]],"date-time":"2018-02-16T20:11:36Z","timestamp":1518811896000},"page":"2228-2236","source":"Crossref","is-referenced-by-count":33,"title":["Multiobjective multifactor dimensionality reduction to detect SNP\u2013SNP interactions"],"prefix":"10.1093","volume":"34","author":[{"given":"Cheng-Hong","family":"Yang","sequence":"first","affiliation":[{"name":"Department of Electronic Engineering, National Kaohsiung University of Applied Sciences, Kaohsiung, Taiwan"},{"name":"Graduate Institute of Clinical Medicine, Kaohsiung Medical University, Kaohsiung, Taiwan"}]},{"given":"Li-Yeh","family":"Chuang","sequence":"additional","affiliation":[{"name":"Department of Chemical Engineering and Institute of Biotechnology and Chemical Engineering, I-Shou University, Kaohsiung, Taiwan"}]},{"given":"Yu-Da","family":"Lin","sequence":"additional","affiliation":[{"name":"Department of Electronic Engineering, National Kaohsiung University of Applied Sciences, Kaohsiung, Taiwan"}]}],"member":"286","published-online":{"date-parts":[[2018,2,19]]},"reference":[{"key":"2023051604095961700_bty076-B1","doi-asserted-by":"crossref","first-page":"661","DOI":"10.1038\/nature05911","article-title":"Genome-wide association study of 14, 000 cases of seven common diseases and 3, 000 shared controls","volume":"447","author":"Burton","year":"2007","journal-title":"Nature"},{"key":"2023051604095961700_bty076-B2","doi-asserted-by":"crossref","first-page":"2173","DOI":"10.1093\/bioinformatics\/btl347","article-title":"Parallel multifactor dimensionality reduction: a tool for the large-scale analysis of gene-gene interactions","volume":"22","author":"Bush","year":"2006","journal-title":"Bioinformatics"},{"key":"2023051604095961700_bty076-B3","doi-asserted-by":"crossref","first-page":"238","DOI":"10.1186\/1471-2105-9-238","article-title":"Alternative contingency table measures improve the power and detection of multifactor dimensionality reduction","volume":"9","author":"Bush","year":"2008","journal-title":"BMC Bioinformatics"},{"key":"2023051604095961700_bty076-B4","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1093\/bioinformatics\/btl557","article-title":"Odds ratio based multifactor-dimensionality reduction method for detecting gene-gene interactions","volume":"23","author":"Chung","year":"2007","journal-title":"Bioinformatics"},{"key":"2023051604095961700_bty076-B5","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1186\/1471-2105-5-49","article-title":"An application of conditional logistic regression and multifactor dimensionality reduction for detecting gene-gene interactions on risk of myocardial infarction: the importance of model validation","volume":"5","author":"Coffey","year":"2004","journal-title":"BMC Bioinformatics"},{"key":"2023051604095961700_bty076-B6","first-page":"403","author":"Deb","year":"2014"},{"key":"2023051604095961700_bty076-B7","doi-asserted-by":"crossref","first-page":"1739","DOI":"10.3892\/or.2016.4956","article-title":"Breast cancer-associated high-order SNP-SNP interaction of CXCL12\/CXCR4-related genes by an improved multifactor dimensionality reduction (MDR-ER)","volume":"36","author":"Fu","year":"2016","journal-title":"Oncol. 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