{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,19]],"date-time":"2025-06-19T04:35:44Z","timestamp":1750307744068,"version":"3.41.0"},"reference-count":30,"publisher":"Association for Computing Machinery (ACM)","issue":"1","license":[{"start":{"date-parts":[[2008,3,1]],"date-time":"2008-03-01T00:00:00Z","timestamp":1204329600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"funder":[{"DOI":"10.13039\/100000183","name":"Army Research Office","doi-asserted-by":"publisher","award":["W91INF-05-1-0404"],"award-info":[{"award-number":["W91INF-05-1-0404"]}],"id":[{"id":"10.13039\/100000183","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["1R21AI067543-01"],"award-info":[{"award-number":["1R21AI067543-01"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["1SC1GM081068"],"award-info":[{"award-number":["1SC1GM081068"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000180","name":"U.S. Department of Homeland Security","doi-asserted-by":"publisher","award":["N0014-07-1-0151"],"award-info":[{"award-number":["N0014-07-1-0151"]}],"id":[{"id":"10.13039\/100000180","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100006545","name":"National Institute on Minority Health and Health Disparities","doi-asserted-by":"publisher","award":["2G12RR013646"],"award-info":[{"award-number":["2G12RR013646"]}],"id":[{"id":"10.13039\/100006545","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":["ACM Trans. Knowl. Discov. Data"],"published-print":{"date-parts":[[2008,3]]},"abstract":"<jats:p>Microarray technology has generated enormous amounts of high-dimensional gene expression data, providing a unique platform for exploring gene regulatory networks. However, the curse of dimensionality plagues effort to analyze these high throughput data. Linear Discriminant Analysis (LDA) and Biased Discriminant Analysis (BDA) are two popular techniques for dimension reduction, which pay attention to different roles of the positive and negative samples in finding discriminating subspace. However, the drawbacks of these two methods are obvious: LDA has limited efficiency in classifying sample data from subclasses with different distributions, and BDA does not account for the underlying distribution of negative samples.<\/jats:p>\n          <jats:p>\n            In this paper, we propose a novel dimension reduction technique for microarray analysis: Adaptive Discriminant Analysis (ADA), which effectively exploits favorable attributes of both BDA and LDA and avoids their unfavorable ones. ADA can find a good discriminative subspace with adaptation to different sample distributions. It not only alleviates the problem of high dimensionality, but also enhances the classification performance in the subspace with na\u00efve Bayes classifier. To learn the best model fitting the real scenario, boosted Adaptive Discriminant Analysis is further proposed. Extensive experiments on the yeast cell cycle regulation data set, and the expression data of the red blood cell cycle in malaria parasite\n            <jats:italic>Plasmodium falciparum<\/jats:italic>\n            demonstrate the superior performance of ADA and boosted ADA. We also present some putative genes of specific functional classes predicted by boosted ADA. Their potential functionality is confirmed by independent predictions based on Gene Ontology, demonstrating that ADA and boosted ADA are effective dimension reduction methods for microarray-based classification.\n          <\/jats:p>","DOI":"10.1145\/1342320.1342325","type":"journal-article","created":{"date-parts":[[2008,4,8]],"date-time":"2008-04-08T15:40:00Z","timestamp":1207669200000},"page":"1-20","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":1,"title":["Adaptive discriminant analysis for microarray-based classification"],"prefix":"10.1145","volume":"2","author":[{"given":"Yijuan","family":"Lu","sequence":"first","affiliation":[{"name":"The University of Texas at San Antonio, TX"}]},{"given":"Qi","family":"Tian","sequence":"additional","affiliation":[{"name":"The University of Texas at San Antonio, TX"}]},{"given":"Jennifer","family":"Neary","sequence":"additional","affiliation":[{"name":"The University of Texas at San Antonio, TX"}]},{"given":"Feng","family":"Liu","sequence":"additional","affiliation":[{"name":"The University of Texas at San Antonio, TX"}]},{"given":"Yufeng","family":"Wang","sequence":"additional","affiliation":[{"name":"The University of Texas at San Antonio, TX"}]}],"member":"320","published-online":{"date-parts":[[2008,4,3]]},"reference":[{"key":"e_1_2_1_1_1","doi-asserted-by":"publisher","DOI":"10.1109\/34.598228"},{"key":"e_1_2_1_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.0000005"},{"volume-title":"et al","year":"2000","author":"Brown M. P. S.","key":"e_1_2_1_3_1"},{"key":"e_1_2_1_4_1","doi-asserted-by":"crossref","unstructured":"Chipman H. Hastie T. and Tibshirani R. 2003. Clustering microarray data. In Statistical Analysis of Gene Expression Microarray Data Chapman &amp; Hall Boca Raton FL.  Chipman H. Hastie T. and Tibshirani R. 2003. Clustering microarray data. In Statistical Analysis of Gene Expression Microarray Data Chapman &amp; Hall Boca Raton FL.","DOI":"10.1201\/9780203011232.ch4"},{"volume-title":"Proceedings of the 1st Asia-Pacific Bioinformatics Conference, 189--198","author":"Cho S. B.","key":"e_1_2_1_5_1"},{"key":"e_1_2_1_6_1","unstructured":"Duda R. Hart P. and Stork D. 2001. Pattern Classification 2nd Ed. John Wiley &amp; Sons Inc.   Duda R. Hart P. and Stork D. 2001. Pattern Classification 2nd Ed. John Wiley &amp; Sons Inc."},{"volume-title":"Tech. Rep. 576, Department of Statistics","year":"2000","author":"Dudoit S.","key":"e_1_2_1_7_1"},{"key":"e_1_2_1_8_1","doi-asserted-by":"crossref","unstructured":"Eisen M. B. Spellman P. T. Brown P. O. and Bostein D. 1998. Cluster analysis and display of genome-wide expression patterns. In Proceedings of the National Academy of Science. 14863--14868.  Eisen M. B. Spellman P. T. Brown P. O. and Bostein D. 1998. Cluster analysis and display of genome-wide expression patterns. In Proceedings of the National Academy of Science. 14863--14868.","DOI":"10.1073\/pnas.95.25.14863"},{"key":"e_1_2_1_9_1","doi-asserted-by":"publisher","DOI":"10.1364\/JOSAA.14.001724"},{"key":"e_1_2_1_10_1","doi-asserted-by":"crossref","unstructured":"Ewans W. J. and Grant G. R. 2001. Statistical Methods in Bioinformatics Springer-Verlag.  Ewans W. J. and Grant G. R. 2001. Statistical Methods in Bioinformatics Springer-Verlag.","DOI":"10.1007\/978-1-4757-3247-4"},{"key":"e_1_2_1_11_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-1809.1936.tb02137.x"},{"key":"e_1_2_1_12_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-1809.1938.tb02189.x"},{"key":"e_1_2_1_13_1","first-page":"771","article-title":"A short introduction to boosting","volume":"14","author":"Freund Y.","year":"1999","journal-title":"J. Japan. Soc. AI"},{"key":"e_1_2_1_14_1","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.42.10.2731"},{"key":"e_1_2_1_15_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature01097"},{"key":"e_1_2_1_16_1","doi-asserted-by":"publisher","DOI":"10.1038\/75556"},{"key":"e_1_2_1_17_1","doi-asserted-by":"publisher","DOI":"10.1145\/331499.331504"},{"edition":"2","volume-title":"Principal Component Analysis","author":"Jolliffe I. T.","key":"e_1_2_1_18_1"},{"key":"e_1_2_1_19_1","doi-asserted-by":"publisher","DOI":"10.1038\/89044"},{"key":"e_1_2_1_20_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/17.12.1131"},{"key":"e_1_2_1_21_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.192502"},{"key":"e_1_2_1_22_1","first-page":"44","article-title":"On combing multiple microarray studies for improved functional classification by whole-dataset feature selection","volume":"14","author":"Ng S.","year":"2003","journal-title":"Genome Inform."},{"key":"e_1_2_1_23_1","doi-asserted-by":"publisher","DOI":"10.1517\/14622416.3.3.403"},{"key":"e_1_2_1_24_1","doi-asserted-by":"publisher","DOI":"10.1109\/34.765652"},{"key":"e_1_2_1_25_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.96.6.2907"},{"key":"e_1_2_1_26_1","doi-asserted-by":"publisher","DOI":"10.1038\/10343"},{"edition":"2","volume-title":"Information retrieval","author":"Van Rijsbergen C.","key":"e_1_2_1_27_1"},{"volume-title":"Proceedings of IEEE Conference Computer Vision and Pattern Recognition.","author":"Wu Y.","key":"e_1_2_1_28_1"},{"key":"e_1_2_1_29_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.913403"},{"volume-title":"Proceedings of IEEE Conference on Computer Vision and Pattern Recognition.","author":"Zhou X.","key":"e_1_2_1_30_1"}],"container-title":["ACM Transactions on Knowledge Discovery from Data"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/1342320.1342325","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/1342320.1342325","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T13:39:03Z","timestamp":1750253943000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/1342320.1342325"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,3]]},"references-count":30,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,3]]}},"alternative-id":["10.1145\/1342320.1342325"],"URL":"https:\/\/doi.org\/10.1145\/1342320.1342325","relation":{},"ISSN":["1556-4681","1556-472X"],"issn-type":[{"type":"print","value":"1556-4681"},{"type":"electronic","value":"1556-472X"}],"subject":[],"published":{"date-parts":[[2008,3]]},"assertion":[{"value":"2007-11-01","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2007-12-01","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2008-04-03","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}