{"id":"https://openalex.org/W2963579612","doi":"https://doi.org/10.1109/access.2019.2929363","title":"ProtDec-LTR3.0: Protein Remote Homology Detection by Incorporating Profile-Based Features Into Learning to Rank","display_name":"ProtDec-LTR3.0: Protein Remote Homology Detection by Incorporating Profile-Based Features Into Learning to Rank","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2963579612","doi":"https://doi.org/10.1109/access.2019.2929363","mag":"2963579612"},"language":"en","primary_location":{"id":"doi:10.1109/access.2019.2929363","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2019.2929363","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08765711.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08765711.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100395532","display_name":"Bin Liu","orcid":"https://orcid.org/0000-0002-8520-8374"},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Bin Liu","raw_affiliation_strings":["Advanced Research Institute of Multidisciplinary Science, Beijing Institute of Technology, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Advanced Research Institute of Multidisciplinary Science, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041126817","display_name":"Yulin Zhu","orcid":"https://orcid.org/0000-0003-4755-3262"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yulin Zhu","raw_affiliation_strings":["School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China","institution_ids":["https://openalex.org/I204983213"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100395532"],"corresponding_institution_ids":["https://openalex.org/I125839683"],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":3.4356,"has_fulltext":true,"cited_by_count":47,"citation_normalized_percentile":{"value":0.93539052,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"7","issue":null,"first_page":"102499","last_page":"102507"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998999834060669,"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":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9944999814033508,"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":0.7449811697006226},{"id":"https://openalex.org/keywords/learning-to-rank","display_name":"Learning to rank","score":0.5610710382461548},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.503757894039154},{"id":"https://openalex.org/keywords/rank","display_name":"Rank (graph theory)","score":0.4607556462287903},{"id":"https://openalex.org/keywords/pagerank","display_name":"PageRank","score":0.4518239200115204},{"id":"https://openalex.org/keywords/ranking","display_name":"Ranking (information retrieval)","score":0.4429720342159271},{"id":"https://openalex.org/keywords/hyperlink","display_name":"Hyperlink","score":0.43291401863098145},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4230429530143738},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.418794184923172},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3537098169326782},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.2947695851325989},{"id":"https://openalex.org/keywords/web-page","display_name":"Web page","score":0.2128254771232605},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13091766834259033},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.10734328627586365}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7449811697006226},{"id":"https://openalex.org/C86037889","wikidata":"https://www.wikidata.org/wiki/Q4330127","display_name":"Learning to rank","level":3,"score":0.5610710382461548},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.503757894039154},{"id":"https://openalex.org/C164226766","wikidata":"https://www.wikidata.org/wiki/Q7293202","display_name":"Rank (graph theory)","level":2,"score":0.4607556462287903},{"id":"https://openalex.org/C2779172887","wikidata":"https://www.wikidata.org/wiki/Q184316","display_name":"PageRank","level":2,"score":0.4518239200115204},{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.4429720342159271},{"id":"https://openalex.org/C30088001","wikidata":"https://www.wikidata.org/wiki/Q102014","display_name":"Hyperlink","level":3,"score":0.43291401863098145},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4230429530143738},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.418794184923172},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3537098169326782},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.2947695851325989},{"id":"https://openalex.org/C21959979","wikidata":"https://www.wikidata.org/wiki/Q36774","display_name":"Web page","level":2,"score":0.2128254771232605},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13091766834259033},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.10734328627586365},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2019.2929363","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2019.2929363","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08765711.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:ea2e6b6b2b43463297d57130d80000fb","is_oa":true,"landing_page_url":"https://doaj.org/article/ea2e6b6b2b43463297d57130d80000fb","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Access, Vol 7, Pp 102499-102507 (2019)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2019.2929363","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2019.2929363","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08765711.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1023919524","display_name":null,"funder_award_id":", Grant","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1231421488","display_name":null,"funder_award_id":"under","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1477544716","display_name":null,"funder_award_id":"Guangdong","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2802911279","display_name":null,"funder_award_id":"Young","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2813597922","display_name":null,"funder_award_id":"2016A030306008","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2981938667","display_name":null,"funder_award_id":"Shenzhen","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3162017210","display_name":null,"funder_award_id":"201803","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3757194791","display_name":null,"funder_award_id":"JCYJ20","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3866723802","display_name":null,"funder_award_id":"201703","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G391238517","display_name":null,"funder_award_id":", and","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4864480503","display_name":null,"funder_award_id":"61822306","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G74711194","display_name":null,"funder_award_id":"61732012","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G75457812","display_name":null,"funder_award_id":"61672184","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7608752429","display_name":null,"funder_award_id":"Talent","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G852339338","display_name":null,"funder_award_id":"2017032","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2963579612.pdf","grobid_xml":"https://content.openalex.org/works/W2963579612.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W1487894924","https://openalex.org/W1494484168","https://openalex.org/W1881353113","https://openalex.org/W1970460545","https://openalex.org/W1994352963","https://openalex.org/W1997841190","https://openalex.org/W2007815473","https://openalex.org/W2012327829","https://openalex.org/W2034115630","https://openalex.org/W2051210555","https://openalex.org/W2058833671","https://openalex.org/W2062296203","https://openalex.org/W2087064593","https://openalex.org/W2091374952","https://openalex.org/W2093177921","https://openalex.org/W2094140553","https://openalex.org/W2107539619","https://openalex.org/W2110118110","https://openalex.org/W2116977569","https://openalex.org/W2117502874","https://openalex.org/W2119270998","https://openalex.org/W2119331235","https://openalex.org/W2133075481","https://openalex.org/W2133657429","https://openalex.org/W2135621733","https://openalex.org/W2146628513","https://openalex.org/W2147660582","https://openalex.org/W2157825442","https://openalex.org/W2158714788","https://openalex.org/W2510820101","https://openalex.org/W2550969987","https://openalex.org/W2562171514","https://openalex.org/W2606325896","https://openalex.org/W2726870159","https://openalex.org/W2765779130","https://openalex.org/W2780936345","https://openalex.org/W2911349016","https://openalex.org/W2914272550","https://openalex.org/W2998678080","https://openalex.org/W4210858416","https://openalex.org/W4236236547","https://openalex.org/W4252684946","https://openalex.org/W6630956611","https://openalex.org/W6683179228"],"related_works":["https://openalex.org/W2096221717","https://openalex.org/W4248250357","https://openalex.org/W2150410176","https://openalex.org/W2542162642","https://openalex.org/W1971605801","https://openalex.org/W1558012608","https://openalex.org/W3127142483","https://openalex.org/W2139195016","https://openalex.org/W2378303769","https://openalex.org/W1986226901"],"abstract_inverted_index":{"Protein":[0],"remote":[1,60,164],"homology":[2,62,165],"detection":[3],"is":[4,19,55,158],"one":[5],"of":[6,14,31,35,98,181,190],"the":[7,12,29,52,65,72,81,96,113,140,156,182,188],"most":[8],"challenging":[9],"problems":[10],"in":[11],"field":[13],"protein":[15,61,73,163,174],"sequence":[16,175],"analysis,":[17],"which":[18,192],"an":[20,56,159],"important":[21],"step":[22],"for":[23,59,162,173,187],"both":[24,144],"theoretical":[25],"research":[26],"(such":[27],"as":[28],"understanding":[30],"structures":[32],"and":[33,37,64,83,93,117,146,148,167],"functions":[34],"proteins)":[36],"drug":[38],"design.":[39],"Previous":[40],"studies":[41],"have":[42],"shown":[43],"that":[44,139,155],"combining":[45],"different":[46],"ranking":[47],"methods":[48],"via":[49,102],"learning":[50,99],"to":[51,100],"rank":[53,101],"algorithm":[54,116],"effective":[57],"strategy":[58],"detection,":[63,166],"performance":[66,108],"can":[67,193],"be":[68,194],"further":[69,110],"improved":[70,80],"by":[71,86,112],"similarity":[74],"networks.":[75],"In":[76],"this":[77],"paper,":[78],"we":[79],"ProtDec-LTR1.0":[82,145],"ProtDec-LTR2.0":[84],"predictors":[85],"incorporating":[87],"three":[88],"profile-based":[89],"features":[90],"(Top-1-gram,":[91],"Top-2-gram,":[92],"ACC)":[94],"into":[95],"framework":[97],"feature":[103],"mapping":[104],"strategies.":[105],"The":[106],"predictive":[107],"was":[109,128,185],"refined":[111],"pagerank":[114],"(PR)":[115],"hyperlink-induced":[118],"topic":[119],"search":[120],"(HITS)":[121],"algorithm.":[122],"Finally,":[123],"a":[124,170],"predictor":[125,142,184],"called":[126],"ProtDec-LTR3.0":[127,141,157,183],"proposed.":[129],"Rigorous":[130],"tests":[131],"on":[132],"two":[133],"widely":[134],"used":[135],"benchmark":[136],"datasets":[137],"showed":[138],"outperformed":[143],"ProtDec-LTR2.0,":[147],"other":[149],"nine":[150],"existing":[151],"state-of-the-art":[152],"predictors,":[153],"indicating":[154],"efficient":[160],"method":[161],"will":[168],"become":[169],"useful":[171],"tool":[172],"analysis.":[176],"A":[177],"user-friendly":[178],"web":[179],"server":[180],"established":[186],"convenience":[189],"users,":[191],"accessed":[195],"at":[196],"http://bliulab.net/ProtDec-LTR3.0/.":[197]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":20},{"year":2019,"cited_by_count":13}],"updated_date":"2026-04-13T07:58:08.660418","created_date":"2025-10-10T00:00:00"}
