{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T14:44:30Z","timestamp":1753886670238,"version":"3.41.2"},"reference-count":24,"publisher":"Wiley","issue":"1","license":[{"start":{"date-parts":[[2008,12,10]],"date-time":"2008-12-10T00:00:00Z","timestamp":1228867200000},"content-version":"vor","delay-in-days":344,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"funder":[{"name":"Ministerio de Ciencia y Tecnolog\u00eda (MCYT), Spain","award":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"],"award-info":[{"award-number":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"]}]},{"name":"Ministerio de Ciencia y Tecnolog\u00eda (MCYT), Spain","award":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"],"award-info":[{"award-number":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"]}]},{"name":"Centre de Refer\u00e8ncia de R+D de Biotecnologia de la Generalitat de Catalunya","award":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"],"award-info":[{"award-number":["BFU2004-06377-C02-01","BIO2007-67904-C02-01"]}]}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Advances in Bioinformatics"],"published-print":{"date-parts":[[2008,1]]},"abstract":"<jats:p><jats:italic>Background<\/jats:italic>. Microarray technology is so expensive and powerful that it is essential to extract maximum value from microarray data. Our tools allow researchers to test and formulate from a hypothesis to entire models. <jats:italic>Results<\/jats:italic>. The objective of the NCRPCOPGene is to study the relationships among gene expressions under different conditions, to classify these conditions, and to study their effect on the different relationships. The web application makes it easier to define the sample classes, grouping the microarray experiments either by using (a) biological, statistical, or any other previous knowledge or (b) their effect on the expression relationship maintained among specific genes of interest. By means of the type (a) class definition, the researcher can add biological information to the gene\u2010expression relationships. The type (b) class definition allows for linking genes correlated neither linearly nor nonlinearly. <jats:italic>Conclusions<\/jats:italic>. The PCOPGene tools are especially suitable for microarrays with large sample series. This application helps to identify cellular states and the genes involved in it in a flexible way. The application takes advantage of the ability of our system to relate gene expressions; even when these relationships are noncontinuous and cannot be found using linear or nonlinear analytical methods.<\/jats:p>","DOI":"10.1155\/2008\/789026","type":"journal-article","created":{"date-parts":[[2008,12,11]],"date-time":"2008-12-11T15:54:27Z","timestamp":1229010867000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["NCR\u2010PCOPGene: An Exploratory Tool for Analysis of Sample\u2010Classes Effect on Gene\u2010Expression Relationships"],"prefix":"10.1155","volume":"2008","author":[{"given":"Juan","family":"Cedano","sequence":"first","affiliation":[]},{"given":"Mario","family":"Huerta","sequence":"additional","affiliation":[]},{"given":"Enrique","family":"Querol","sequence":"additional","affiliation":[]}],"member":"311","published-online":{"date-parts":[[2008,12,10]]},"reference":[{"key":"e_1_2_6_1_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gki022"},{"key":"e_1_2_6_2_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gnj002"},{"key":"e_1_2_6_3_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gki056"},{"key":"e_1_2_6_4_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-6-S4-S6"},{"key":"e_1_2_6_5_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btm079"},{"key":"e_1_2_6_6_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btl378"},{"key":"e_1_2_6_7_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bth444"},{"key":"e_1_2_6_8_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-313X.2004.02016.x"},{"key":"e_1_2_6_9_2","doi-asserted-by":"publisher","DOI":"10.1158\/1078-0432.CCR-05-0997"},{"key":"e_1_2_6_10_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.compbiomed.2007.03.008"},{"key":"e_1_2_6_11_2","doi-asserted-by":"crossref","first-page":"293","DOI":"10.1007\/s001800300145","article-title":"Principal curves of oriented points: theoretical and computational improvements","volume":"18","author":"Delicado P.","year":"2003","journal-title":"Computational Statistics"},{"key":"e_1_2_6_12_2","doi-asserted-by":"publisher","DOI":"10.1142\/S0219720008003394"},{"key":"e_1_2_6_13_2","doi-asserted-by":"publisher","DOI":"10.1006\/jmva.2000.1917"},{"key":"e_1_2_6_14_2","doi-asserted-by":"crossref","first-page":"367","DOI":"10.1142\/S0219720008003394","article-title":"Analysis of nonlinear relations  between expression profiles by the principal curves of oriented-points approach","volume":"6","author":"Huerta M.","year":"2008","journal-title":"Journal of Bioinformatics and Computational Biology"},{"key":"e_1_2_6_15_2","doi-asserted-by":"publisher","DOI":"10.1109\/TIT.2002.802614"},{"key":"e_1_2_6_16_2","doi-asserted-by":"publisher","DOI":"10.1038\/73439"},{"key":"e_1_2_6_17_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M111437200"},{"key":"e_1_2_6_18_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0003-9861(02)00337-5"},{"key":"e_1_2_6_19_2","doi-asserted-by":"publisher","DOI":"10.1038\/sj.onc.1207966"},{"key":"e_1_2_6_20_2","doi-asserted-by":"publisher","DOI":"10.1081\/CNV-120018821"},{"key":"e_1_2_6_21_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btg143"},{"key":"e_1_2_6_22_2","doi-asserted-by":"crossref","first-page":"S136","DOI":"10.1093\/bioinformatics\/18.suppl_1.S136","article-title":"Discovering statistically significant biclusters in gene expression data","volume":"18","author":"Tanay A.","year":"2002","journal-title":"Bioinformatics"},{"key":"e_1_2_6_23_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.290.5500.2323"},{"key":"e_1_2_6_24_2","doi-asserted-by":"crossref","unstructured":"ChaoS.andLihuiC. Feature dimension reduction for microarray data analysis using locally linear embedding 1 Proceedings of the 3rd Asia-Pacific Bioinformatics Conference (APBC \u203205) January 2005 Singapore 211\u2013217 https:\/\/doi.org\/10.1142\/9781860947322_0021.","DOI":"10.1142\/9781860947322_0021"}],"container-title":["Advances in Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/downloads.hindawi.com\/archive\/2008\/789026.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/downloads.hindawi.com\/archive\/2008\/789026.xml","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1155\/2008\/789026","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,7,1]],"date-time":"2024-07-01T13:45:57Z","timestamp":1719841557000},"score":1,"resource":{"primary":{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/10.1155\/2008\/789026"}},"subtitle":[],"editor":[{"given":"Pierre","family":"Rouz\u00e9","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2008,1]]},"references-count":24,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,1]]}},"alternative-id":["10.1155\/2008\/789026"],"URL":"https:\/\/doi.org\/10.1155\/2008\/789026","archive":["Portico"],"relation":{},"ISSN":["1687-8027","1687-8035"],"issn-type":[{"type":"print","value":"1687-8027"},{"type":"electronic","value":"1687-8035"}],"subject":[],"published":{"date-parts":[[2008,1]]},"assertion":[{"value":"2008-02-14","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2008-10-17","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2008-12-10","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"789026"}}