{"id":"https://openalex.org/W2049446389","doi":"https://doi.org/10.1109/tcbb.2014.2369040","title":"Randomized Subspace Learning for Proline Cis-Trans Isomerization Prediction","display_name":"Randomized Subspace Learning for Proline Cis-Trans Isomerization Prediction","publication_year":2014,"publication_date":"2014-11-10","ids":{"openalex":"https://openalex.org/W2049446389","doi":"https://doi.org/10.1109/tcbb.2014.2369040","mag":"2049446389","pmid":"https://pubmed.ncbi.nlm.nih.gov/26357314"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2014.2369040","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2369040","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5047057664","display_name":"Omar Y. Al-Jarrah","orcid":"https://orcid.org/0000-0002-6212-9307"},"institutions":[{"id":"https://openalex.org/I176601375","display_name":"Khalifa University of Science and Technology","ror":"https://ror.org/05hffr360","country_code":"AE","type":"education","lineage":["https://openalex.org/I176601375"]}],"countries":["AE"],"is_corresponding":true,"raw_author_name":"Omar Y. Al-Jarrah","raw_affiliation_strings":["ECE Dept., Khalifa University, Abu Dhabi"],"affiliations":[{"raw_affiliation_string":"ECE Dept., Khalifa University, Abu Dhabi","institution_ids":["https://openalex.org/I176601375"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014443986","display_name":"Paul D. Yoo","orcid":"https://orcid.org/0000-0001-7665-8616"},"institutions":[{"id":"https://openalex.org/I9300472","display_name":"Bournemouth University","ror":"https://ror.org/05wwcw481","country_code":"GB","type":"education","lineage":["https://openalex.org/I9300472"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Paul D. Yoo","raw_affiliation_strings":["Data Science Institute, Bournemouth University, United Kingdom","Data Science Institute, Bournemouth University. United Kingdom"],"affiliations":[{"raw_affiliation_string":"Data Science Institute, Bournemouth University, United Kingdom","institution_ids":["https://openalex.org/I9300472"]},{"raw_affiliation_string":"Data Science Institute, Bournemouth University. United Kingdom","institution_ids":["https://openalex.org/I9300472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074032096","display_name":"Kamal Taha","orcid":"https://orcid.org/0000-0002-6674-4614"},"institutions":[{"id":"https://openalex.org/I176601375","display_name":"Khalifa University of Science and Technology","ror":"https://ror.org/05hffr360","country_code":"AE","type":"education","lineage":["https://openalex.org/I176601375"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Kamal Taha","raw_affiliation_strings":["ECE Dept., Khalifa University, Abu Dhabi"],"affiliations":[{"raw_affiliation_string":"ECE Dept., Khalifa University, Abu Dhabi","institution_ids":["https://openalex.org/I176601375"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004034156","display_name":"Sami Muhaidat","orcid":"https://orcid.org/0000-0003-4649-9399"},"institutions":[{"id":"https://openalex.org/I176601375","display_name":"Khalifa University of Science and Technology","ror":"https://ror.org/05hffr360","country_code":"AE","type":"education","lineage":["https://openalex.org/I176601375"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Sami Muhaidat","raw_affiliation_strings":["ECE Dept., Khalifa University, Abu Dhabi"],"affiliations":[{"raw_affiliation_string":"ECE Dept., Khalifa University, Abu Dhabi","institution_ids":["https://openalex.org/I176601375"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041270670","display_name":"Abdallah Shami","orcid":"https://orcid.org/0000-0003-2887-0350"},"institutions":[{"id":"https://openalex.org/I125749732","display_name":"Western University","ror":"https://ror.org/02grkyz14","country_code":"CA","type":"education","lineage":["https://openalex.org/I125749732"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Abdallah Shami","raw_affiliation_strings":["ECE Department, University of Western Ontario, London, Canada","[ECE Department, University of Western Ontario, London, Canada]"],"affiliations":[{"raw_affiliation_string":"ECE Department, University of Western Ontario, London, Canada","institution_ids":["https://openalex.org/I125749732"]},{"raw_affiliation_string":"[ECE Department, University of Western Ontario, London, Canada]","institution_ids":["https://openalex.org/I125749732"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040640075","display_name":"Nazar Zaki","orcid":"https://orcid.org/0000-0002-6259-9843"},"institutions":[{"id":"https://openalex.org/I201726411","display_name":"United Arab Emirates University","ror":"https://ror.org/01km6p862","country_code":"AE","type":"education","lineage":["https://openalex.org/I201726411"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Nazar Zaki","raw_affiliation_strings":["College of Information Technology, UAE University, UAE"],"affiliations":[{"raw_affiliation_string":"College of Information Technology, UAE University, UAE","institution_ids":["https://openalex.org/I201726411"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5047057664"],"corresponding_institution_ids":["https://openalex.org/I176601375"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.08509637,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"12","issue":"4","first_page":"763","last_page":"769"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"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":0.9998000264167786,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9990000128746033,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9979000091552734,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5226685404777527},{"id":"https://openalex.org/keywords/isomerization","display_name":"Isomerization","score":0.47788727283477783},{"id":"https://openalex.org/keywords/proline","display_name":"Proline","score":0.46673616766929626},{"id":"https://openalex.org/keywords/protein-folding","display_name":"Protein folding","score":0.4433787167072296},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.43875256180763245},{"id":"https://openalex.org/keywords/subspace-topology","display_name":"Subspace topology","score":0.4232715368270874},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3976331949234009},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3561995029449463},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11867132782936096},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10924282670021057}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5226685404777527},{"id":"https://openalex.org/C126661725","wikidata":"https://www.wikidata.org/wiki/Q903420","display_name":"Isomerization","level":3,"score":0.47788727283477783},{"id":"https://openalex.org/C2779815552","wikidata":"https://www.wikidata.org/wiki/Q484583","display_name":"Proline","level":3,"score":0.46673616766929626},{"id":"https://openalex.org/C204328495","wikidata":"https://www.wikidata.org/wiki/Q847556","display_name":"Protein folding","level":2,"score":0.4433787167072296},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.43875256180763245},{"id":"https://openalex.org/C32834561","wikidata":"https://www.wikidata.org/wiki/Q660730","display_name":"Subspace topology","level":2,"score":0.4232715368270874},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3976331949234009},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3561995029449463},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11867132782936096},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10924282670021057},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.0},{"id":"https://openalex.org/C161790260","wikidata":"https://www.wikidata.org/wiki/Q82264","display_name":"Catalysis","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007536","descriptor_name":"Isomerism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007536","descriptor_name":"Isomerism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007536","descriptor_name":"Isomerism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2014.2369040","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2369040","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26357314","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26357314","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320971","display_name":"Monash University","ror":"https://ror.org/02bfwt286"},{"id":"https://openalex.org/F4320322676","display_name":"University of Waterloo","ror":"https://ror.org/01aff2v68"},{"id":"https://openalex.org/F4320332477","display_name":"Graduate Center","ror":"https://ror.org/00awd9g61"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W656781005","https://openalex.org/W1558495441","https://openalex.org/W1906899828","https://openalex.org/W1988790447","https://openalex.org/W1991126572","https://openalex.org/W1995285602","https://openalex.org/W2000430596","https://openalex.org/W2003290935","https://openalex.org/W2005586076","https://openalex.org/W2022235170","https://openalex.org/W2026672114","https://openalex.org/W2027221119","https://openalex.org/W2028523928","https://openalex.org/W2035891030","https://openalex.org/W2041046137","https://openalex.org/W2055043387","https://openalex.org/W2073699475","https://openalex.org/W2084281591","https://openalex.org/W2096586347","https://openalex.org/W2108327555","https://openalex.org/W2115906826","https://openalex.org/W2119821739","https://openalex.org/W2138973161","https://openalex.org/W2147351132","https://openalex.org/W2148201549","https://openalex.org/W2153187042","https://openalex.org/W4230812164","https://openalex.org/W4236236547","https://openalex.org/W4239510810","https://openalex.org/W4388325152","https://openalex.org/W4388325473"],"related_works":["https://openalex.org/W4211236159","https://openalex.org/W2322302740","https://openalex.org/W2050436109","https://openalex.org/W2011727057","https://openalex.org/W2155066843","https://openalex.org/W2912721360","https://openalex.org/W2375093529","https://openalex.org/W2097120237","https://openalex.org/W2006624744","https://openalex.org/W2326838180"],"abstract_inverted_index":{"Proline":[0],"residues":[1],"are":[2],"common":[3],"source":[4],"of":[5,23,35,64,71,75,81],"kinetic":[6],"complications":[7],"during":[8],"folding.":[9],"The":[10,31],"X-Pro":[11,36],"peptide":[12,17,37],"bond":[13,18],"is":[14,29,39,74,132],"the":[15,21,24,59,65,79,93,137,145,148,174],"only":[16,48],"for":[19,78,194],"which":[20,45,131],"stability":[22],"cis":[25],"and":[26,61,87,96,122,128,163,190],"trans":[27],"conformations":[28],"comparable.":[30],"cis-trans":[32],"isomerization":[33],"(CTI)":[34],"bonds":[38],"a":[40,105,112,118,133,188],"widely":[41],"recognized":[42],"rate-limiting":[43],"factor,":[44],"can":[46],"not":[47],"induces":[49],"additional":[50],"slow":[51],"phases":[52],"in":[53,91,144],"protein":[54,82],"folding":[55],"but":[56],"also":[57],"modifies":[58],"millisecond":[60],"sub-millisecond":[62],"dynamics":[63],"protein.":[66],"An":[67],"accurate":[68],"computational":[69],"prediction":[70],"proline":[72,108,195],"CTI":[73,109,196],"great":[76],"importance":[77],"understanding":[80],"folding,":[83],"splicing,":[84],"cell":[85],"signaling,":[86],"transmembrane":[88],"active":[89],"transport":[90],"both":[92],"human":[94],"body":[95],"animals.":[97],"In":[98,152],"our":[99,171],"earlier":[100,172],"work,":[101,173],"we":[102,155],"successfully":[103],"developed":[104],"biophysically":[106],"motivated":[107],"predictor":[110],"utilizing":[111],"novel":[113,159],"tree-based":[114],"consensus":[115,175],"model":[116],"with":[117,158],"powerful":[119],"metalearning":[120],"technique":[121],"achieved":[123],"86.58":[124],"percent":[125,140],"Q2":[126,141],"accuracy":[127,186],"0.74":[129],"Mcc,":[130],"better":[134,185],"result":[135],"than":[136],"results":[138],"(70-73":[139],"accuracies)":[142],"reported":[143],"literature":[146],"on":[147],"well-referenced":[149],"benchmark":[150],"dataset.":[151],"this":[153],"paper,":[154],"describe":[156],"experiments":[157],"randomized":[160],"subspace":[161],"learning":[162,181,192],"bootstrap":[164],"seeding":[165],"techniques":[166],"as":[167,177,179],"an":[168],"extension":[169],"to":[170,183],"models":[176],"well":[178],"entropy-based":[180],"methods,":[182],"obtain":[184],"through":[187],"precise":[189],"robust":[191],"scheme":[193],"prediction.":[197]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
