{"id":"https://openalex.org/W2089264582","doi":"https://doi.org/10.1109/bibe.2008.4696700","title":"Extracting decision rules in prediction of protein secondary structure","display_name":"Extracting decision rules in prediction of protein secondary structure","publication_year":2008,"publication_date":"2008-10-01","ids":{"openalex":"https://openalex.org/W2089264582","doi":"https://doi.org/10.1109/bibe.2008.4696700","mag":"2089264582"},"language":"en","primary_location":{"id":"doi:10.1109/bibe.2008.4696700","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2008.4696700","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 8th IEEE International Conference on BioInformatics and BioEngineering","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101415930","display_name":"Minh N. Nguyen","orcid":"https://orcid.org/0000-0003-4949-2571"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Minh N. Nguyen","raw_affiliation_strings":["Biolnfonnatics Institute and the Biolnfonnatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biolnfonnatics Institute and the Biolnfonnatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015925094","display_name":"Jacek M. \u017burada","orcid":"https://orcid.org/0000-0001-6622-534X"},"institutions":[{"id":"https://openalex.org/I142740786","display_name":"University of Louisville","ror":"https://ror.org/01ckdn478","country_code":"US","type":"education","lineage":["https://openalex.org/I142740786"]},{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG","US"],"is_corresponding":false,"raw_author_name":"Jacek M. Zurada","raw_affiliation_strings":["BioInformatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore","Department of Electrical and Computer Engineering, University of Louisville, Louisville, KY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioInformatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore","institution_ids":["https://openalex.org/I172675005"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of Louisville, Louisville, KY, USA","institution_ids":["https://openalex.org/I142740786"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026076885","display_name":"Jagath C. Rajapakse","orcid":"https://orcid.org/0000-0001-7944-1658"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"id":"https://openalex.org/I4210167254","display_name":"Singapore-MIT Alliance for Research and Technology","ror":"https://ror.org/05yb3w112","country_code":"SG","type":"education","lineage":["https://openalex.org/I4210167254"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["SG","US"],"is_corresponding":false,"raw_author_name":"Jagath C. Rajapakse","raw_affiliation_strings":["BioInfonnatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore","Singapore-MIT Alliance, Singapore, and Biological Engineering Division, Massachusetts Institute of Technology, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioInfonnatics Research Centre, School of Computer Engineering, Nanyang Technological University, Singapore","institution_ids":["https://openalex.org/I172675005"]},{"raw_affiliation_string":"Singapore-MIT Alliance, Singapore, and Biological Engineering Division, Massachusetts Institute of Technology, USA","institution_ids":["https://openalex.org/I4210167254","https://openalex.org/I63966007"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"13","issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9833999872207642,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/interpretability","display_name":"Interpretability","score":0.8907817602157593},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.663649320602417},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.5897890329360962},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5570806860923767},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5256508588790894},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.49128788709640503},{"id":"https://openalex.org/keywords/decision-tree","display_name":"Decision tree","score":0.4814526438713074},{"id":"https://openalex.org/keywords/black-box","display_name":"Black box","score":0.47190767526626587},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4406251013278961}],"concepts":[{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.8907817602157593},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.663649320602417},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.5897890329360962},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5570806860923767},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5256508588790894},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.49128788709640503},{"id":"https://openalex.org/C84525736","wikidata":"https://www.wikidata.org/wiki/Q831366","display_name":"Decision tree","level":2,"score":0.4814526438713074},{"id":"https://openalex.org/C94966114","wikidata":"https://www.wikidata.org/wiki/Q29256","display_name":"Black box","level":2,"score":0.47190767526626587},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4406251013278961},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibe.2008.4696700","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2008.4696700","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 8th IEEE International Conference on BioInformatics and BioEngineering","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/16","score":0.7799999713897705,"display_name":"Peace, Justice and strong institutions"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320309369","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W1491040459","https://openalex.org/W1570448133","https://openalex.org/W1592614241","https://openalex.org/W1602492977","https://openalex.org/W1966849089","https://openalex.org/W1985818354","https://openalex.org/W2002272439","https://openalex.org/W2008907996","https://openalex.org/W2018461502","https://openalex.org/W2051215700","https://openalex.org/W2053621743","https://openalex.org/W2071989882","https://openalex.org/W2081359387","https://openalex.org/W2087894810","https://openalex.org/W2104972430","https://openalex.org/W2105461827","https://openalex.org/W2110407472","https://openalex.org/W2121648552","https://openalex.org/W2122026259","https://openalex.org/W2122945697","https://openalex.org/W2125055259","https://openalex.org/W2134299061","https://openalex.org/W2138929157","https://openalex.org/W2141920771","https://openalex.org/W2150346640","https://openalex.org/W2153187042","https://openalex.org/W2154910270","https://openalex.org/W2157046483","https://openalex.org/W2172000360"],"related_works":["https://openalex.org/W2797441709","https://openalex.org/W2943982549","https://openalex.org/W4293151273","https://openalex.org/W2886918272","https://openalex.org/W4387589990","https://openalex.org/W4297660007","https://openalex.org/W1986582023","https://openalex.org/W2966829450","https://openalex.org/W2346578521","https://openalex.org/W4241566321"],"abstract_inverted_index":{"Information":[0],"on":[1,179],"secondary":[2,32],"structures":[3],"of":[4,16,42,67,74,94,119,131,160,183],"amino":[5],"acid":[6],"residues":[7],"in":[8,146],"proteins":[9],"provides":[10],"valuable":[11],"clues":[12],"for":[13],"the":[14,46,55,59,77,90,126,132,180],"prediction":[15,47,56,69,148],"their":[17],"3-D":[18],"structure":[19,33],"and":[20,58,92,121,151,155,177],"function.":[21],"Although":[22],"numerous":[23],"computational":[24],"techniques":[25],"have":[26,38],"been":[27],"applied":[28],"to":[29,76,99,135],"predict":[30],"protein":[31],"(PSS),":[34],"only":[35],"limited":[36],"studies":[37],"dealt":[39],"with":[40,107],"discovery":[41],"logic":[43],"rules":[44,50,102,124,133,156,174],"underlying":[45,60,125],"itself.":[48],"Such":[49],"offer":[51],"interesting":[52],"links":[53],"between":[54],"model":[57,79],"biology.":[61],"In":[62,85],"addition,":[63],"they":[64],"enhance":[65],"interpretability":[66],"PSS":[68,104,127],"by":[70,139,167],"providing":[71],"a":[72,83],"degree":[73],"transparency":[75],"predicting":[78],"usually":[80,152],"regarded":[81],"as":[82],"black-box.":[84],"this":[86],"paper,":[87],"we":[88],"explore":[89],"generation":[91],"use":[93],"C":[95],"4.5":[96],"decision":[97],"trees":[98],"extract":[100],"relevant":[101],"from":[103],"predictions":[105],"modeled":[106],"two-stage":[108],"support":[109],"vector":[110],"machines":[111],"(TS-SVM).":[112],"Our":[113],"approach":[114,144],"has":[115],"produced":[116],"sizable":[117],"sets":[118],"comprehensible,":[120],"often":[122],"interpretable,":[123],"predictions.":[128],"Moreover,":[129],"many":[130],"seem":[134],"be":[136],"strongly":[137],"supported":[138],"biological":[140],"evidence.":[141],"Further,":[142],"our":[143],"resulted":[145],"good":[147],"accuracy,":[149],"few":[150],"compact":[153],"rules,":[154],"that":[157],"are":[158],"generally":[159],"higher":[161],"confidence":[162],"levels":[163],"than":[164],"those":[165],"generated":[166],"other":[168],"rule":[169],"extraction":[170],"techniques.":[171],"The":[172],"proposed":[173],"were":[175],"derived":[176],"tested":[178],"RS126":[181],"dataset":[182],"126":[184],"nonhomologous":[185],"globular":[186],"proteins.":[187]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}