{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,1,15]],"date-time":"2024-01-15T00:05:24Z","timestamp":1705277124364},"reference-count":75,"publisher":"World Scientific Pub Co Pte Ltd","issue":"03","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Bioinform. Comput. Biol."],"published-print":{"date-parts":[[2004,9]]},"abstract":"<jats:p>This paper presents a new neural learning algorithm for protease cleavage site prediction. The basic idea is to replace the radial basis function used in radial basis function neural networks by a so-called bio-basis function using amino acid similarity matrices. Mutual information is used to select bio-bases and a corresponding selection algorithm is developed. The algorithm has been applied to the prediction of HIV and Hepatitis C virus protease cleavage sites in proteins with success.<\/jats:p>","DOI":"10.1142\/s0219720004000715","type":"journal-article","created":{"date-parts":[[2004,9,6]],"date-time":"2004-09-06T11:50:09Z","timestamp":1094471409000},"page":"511-531","source":"Crossref","is-referenced-by-count":8,"title":["REDUCED BIO-BASIS FUNCTION NEURAL NETWORKS FOR PROTEASE CLEAVAGE SITE PREDICTION"],"prefix":"10.1142","volume":"02","author":[{"given":"ZHENG RONG","family":"YANG","sequence":"first","affiliation":[{"name":"Department of Computer Science, Exeter University, Exeter EX4 4QF, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"EMILY A.","family":"BERRY","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Exeter University, Exeter EX4 4QF, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"219","published-online":{"date-parts":[[2011,11,21]]},"reference":[{"key":"rf1","unstructured":"T.\u00a0Alber, Mobility and Function in Proteins and Nucleic Acids, Ciba Foundation Symposium\u00a093, ed. F. M.\u00a0Richards (1982)\u00a0pp. 4\u201324."},{"key":"rf2","first-page":"353","volume":"7","author":"Arrigo P.","journal-title":"CABIOS"},{"key":"rf3","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.87.19.7472"},{"key":"rf5","doi-asserted-by":"publisher","DOI":"10.1016\/0065-2571(94)90021-3"},{"key":"rf6","doi-asserted-by":"crossref","DOI":"10.1093\/oso\/9780198538493.001.0001","volume-title":"Neural Networks for Pattern Recognition","author":"Bishop C.","year":"1995"},{"key":"rf7","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1999.3310"},{"key":"rf8","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/17.5.455"},{"key":"rf9","doi-asserted-by":"publisher","DOI":"10.1016\/0022-2836(91)90380-O"},{"key":"rf10","doi-asserted-by":"publisher","DOI":"10.1016\/S0965-9978(98)00046-5"},{"key":"rf11","doi-asserted-by":"publisher","DOI":"10.1006\/mcbr.2001.0285"},{"key":"rf12","doi-asserted-by":"publisher","DOI":"10.1016\/S0196-9781(01)00597-6"},{"key":"rf13","doi-asserted-by":"publisher","DOI":"10.1016\/S1570-9639(03)00112-2"},{"key":"rf14","doi-asserted-by":"publisher","DOI":"10.1006\/jtbi.2003.3179"},{"key":"rf15","doi-asserted-by":"publisher","DOI":"10.1109\/72.392252"},{"key":"rf16","doi-asserted-by":"publisher","DOI":"10.1109\/78.398734"},{"key":"rf17","doi-asserted-by":"publisher","DOI":"10.1109\/72.478403"},{"key":"rf18","doi-asserted-by":"publisher","DOI":"10.1126\/science.2523562"},{"key":"rf19","doi-asserted-by":"publisher","DOI":"10.1002\/bip.360330910"},{"key":"rf20","doi-asserted-by":"publisher","DOI":"10.1007\/BF01028191"},{"key":"rf21","doi-asserted-by":"publisher","DOI":"10.1006\/abio.1996.0001"},{"key":"rf22","unstructured":"M. O.\u00a0Dayhoff, R. M.\u00a0Schwartz and B. C.\u00a0Orcutt, Atlas of protein sequence and structure\u00a05, ed. M. O.\u00a0Dayhoff (National Biomedical Research Foundation, Washington DC, 1978)\u00a0pp. 345\u2013358."},{"key":"rf23","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1997.1242"},{"key":"rf24","volume-title":"Pattern Classification and Scene Analysis","author":"Duda R. O.","year":"2002"},{"key":"rf25","first-page":"161","volume":"11","author":"Dunker A. K.","journal-title":"Genome Inf."},{"key":"rf26","first-page":"195","volume":"7","author":"Elman J. L.","journal-title":"Machine Learning"},{"key":"rf27","doi-asserted-by":"publisher","DOI":"10.1002\/1521-3838(200010)19:4<345::AID-QSAR345>3.0.CO;2-Q"},{"key":"rf28","doi-asserted-by":"publisher","DOI":"10.1046\/j.1432-1033.2002.02767.x"},{"key":"rf30","doi-asserted-by":"publisher","DOI":"10.1016\/0092-8674(91)90378-C"},{"key":"rf31","first-page":"201","volume":"9","author":"Garner E.","journal-title":"Genome Inf."},{"key":"rf32","first-page":"41","volume":"10","author":"Garner E.","journal-title":"Genome Inf."},{"key":"rf33","doi-asserted-by":"publisher","DOI":"10.1021\/bi00452a001"},{"key":"rf34","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.89.22.10915"},{"key":"rf35","first-page":"271","volume":"4","author":"Huber R.","journal-title":"TIBS"},{"key":"rf36","doi-asserted-by":"publisher","DOI":"10.1097\/00001432-199806000-00005"},{"key":"rf37","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1993.1548"},{"key":"rf38","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-88163-3"},{"key":"rf39","doi-asserted-by":"publisher","DOI":"10.1126\/science.2496467"},{"key":"rf40","unstructured":"A.\u00a0Lapedes, Computers and DNA, SFI Studies in the Sciences of Complexity\u00a0VII, eds. G.\u00a0Bell and T.\u00a0Marr (Addison-Wesley, 1989)\u00a0pp. 157\u2013182."},{"key":"rf41","first-page":"31","author":"Leonard J. A.","journal-title":"IEEE Control Sys."},{"key":"rf42","first-page":"30","volume":"10","author":"Li X.","journal-title":"Genome Inf."},{"key":"rf43","first-page":"172","volume":"11","author":"Li X.","journal-title":"Genome Inf."},{"key":"rf44","first-page":"172","volume":"11","author":"Li X.","journal-title":"Genome Inf."},{"key":"rf45","first-page":"322","volume":"13","author":"Minakuchi Y.","journal-title":"Genome Inf."},{"key":"rf46","volume-title":"Connectionist Models Summer School","author":"Moody J.","year":"1988"},{"key":"rf47","doi-asserted-by":"publisher","DOI":"10.1162\/neco.1989.1.2.281"},{"key":"rf48","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/18.suppl_1.S5"},{"key":"rf49","doi-asserted-by":"publisher","DOI":"10.1016\/S0014-5793(03)00456-3"},{"key":"rf50","doi-asserted-by":"publisher","DOI":"10.1109\/5.58326"},{"key":"rf51","doi-asserted-by":"publisher","DOI":"10.1002\/prot.10082"},{"key":"rf52","first-page":"14554","volume":"22","author":"Poorman R. A.","journal-title":"J. Biol. Chem."},{"key":"rf53","doi-asserted-by":"publisher","DOI":"10.1006\/jtbi.1999.1043"},{"key":"rf55","doi-asserted-by":"publisher","DOI":"10.1080\/10629369308028826"},{"key":"rf56","first-page":"4709","volume":"271","author":"Ridly T. W.","journal-title":"J. Biol. Chem."},{"key":"rf58","first-page":"110","volume":"8","author":"Romero P.","journal-title":"Genome Inf."},{"key":"rf59","doi-asserted-by":"publisher","DOI":"10.1023\/A:1006678623815"},{"key":"rf60","doi-asserted-by":"crossref","DOI":"10.7551\/mitpress\/5236.001.0001","volume-title":"Parallel Distributed Processing: Exploration in the Cognition","author":"Rumelhart D. E.","year":"1986"},{"key":"rf61","doi-asserted-by":"publisher","DOI":"10.1016\/0022-2836(88)90564-5"},{"key":"rf62","doi-asserted-by":"publisher","DOI":"10.1016\/S0006-291X(67)80055-X"},{"key":"rf63","first-page":"79","author":"Schulz G. E.","journal-title":"Molecular Mechanism of Biological Recognition"},{"key":"rf64","doi-asserted-by":"publisher","DOI":"10.1002\/j.1538-7305.1948.tb01338.x"},{"key":"rf65","first-page":"50","volume":"31","author":"Shannon C. E.","journal-title":"Bell Systems Tech. J."},{"key":"rf66","doi-asserted-by":"publisher","DOI":"10.1016\/S0022-5193(86)80075-3"},{"key":"rf69","first-page":"1741","volume":"21","author":"Thomson R.","journal-title":"Bioinformatics"},{"key":"rf70","doi-asserted-by":"publisher","DOI":"10.1006\/jtbi.1995.0254"},{"key":"rf71","doi-asserted-by":"publisher","DOI":"10.1109\/72.857766"},{"key":"rf72","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4757-2440-0"},{"key":"rf74","doi-asserted-by":"publisher","DOI":"10.1021\/bi961799n"},{"key":"rf75","doi-asserted-by":"publisher","DOI":"10.1162\/neco.1990.2.4.490"},{"key":"rf76","doi-asserted-by":"publisher","DOI":"10.1016\/S1476-9271(02)00098-1"},{"key":"rf79","doi-asserted-by":"publisher","DOI":"10.1109\/34.917574"},{"key":"rf80","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btg477"},{"key":"rf81","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bth001"},{"key":"rf82","first-page":"735","volume":"20","author":"Yang Z. R.","journal-title":"J. Chem. Inf. and Computer Sci."},{"key":"rf84","doi-asserted-by":"publisher","DOI":"10.1093\/glycob\/cwg008"},{"key":"rf85","doi-asserted-by":"publisher","DOI":"10.1002\/prot.1099"}],"container-title":["Journal of Bioinformatics and Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.worldscientific.com\/doi\/pdf\/10.1142\/S0219720004000715","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,1,14]],"date-time":"2024-01-14T09:12:51Z","timestamp":1705223571000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.worldscientific.com\/doi\/abs\/10.1142\/S0219720004000715"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2004,9]]},"references-count":75,"journal-issue":{"issue":"03","published-online":{"date-parts":[[2011,11,21]]},"published-print":{"date-parts":[[2004,9]]}},"alternative-id":["10.1142\/S0219720004000715"],"URL":"https:\/\/doi.org\/10.1142\/s0219720004000715","relation":{},"ISSN":["0219-7200","1757-6334"],"issn-type":[{"value":"0219-7200","type":"print"},{"value":"1757-6334","type":"electronic"}],"subject":[],"published":{"date-parts":[[2004,9]]}}}