{"id":"https://openalex.org/W3116104148","doi":"https://doi.org/10.1109/bibe50027.2020.00030","title":"Deep learning-assisted pipeline for Virtual Screening of ligand compound databases: Application on inhibiting the entry of SARS-CoV-2 into human cells","display_name":"Deep learning-assisted pipeline for Virtual Screening of ligand compound databases: Application on inhibiting the entry of SARS-CoV-2 into human cells","publication_year":2020,"publication_date":"2020-10-01","ids":{"openalex":"https://openalex.org/W3116104148","doi":"https://doi.org/10.1109/bibe50027.2020.00030","mag":"3116104148"},"language":"en","primary_location":{"id":"doi:10.1109/bibe50027.2020.00030","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe50027.2020.00030","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE 20th International Conference on Bioinformatics and Bioengineering (BIBE)","raw_type":"proceedings-article"},"type":"article","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/A5046296679","display_name":"Stelios Mylonas","orcid":"https://orcid.org/0000-0003-2110-3618"},"institutions":[{"id":"https://openalex.org/I4210093649","display_name":"Information Technologies Institute","ror":"https://ror.org/0069akp70","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093649"]},{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":true,"raw_author_name":"Stelios Mylonas","raw_affiliation_strings":["Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210093649","https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045653630","display_name":"\u0391\u03c0\u03cc\u03c3\u03c4\u03bf\u03bb\u03bf\u03c2 \u0391\u03be\u03b5\u03bd\u03cc\u03c0\u03bf\u03c5\u03bb\u03bf\u03c2","orcid":"https://orcid.org/0000-0001-8314-4242"},"institutions":[{"id":"https://openalex.org/I4210093649","display_name":"Information Technologies Institute","ror":"https://ror.org/0069akp70","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093649"]},{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Apostolos Axenopoulos","raw_affiliation_strings":["Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210093649","https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081783897","display_name":"Sotirios Katsamakas","orcid":"https://orcid.org/0000-0001-8715-0359"},"institutions":[{"id":"https://openalex.org/I4210127711","display_name":"National Hellenic Research Foundation","ror":"https://ror.org/033m02g29","country_code":"GR","type":"funder","lineage":["https://openalex.org/I4210127711"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Sotiris Katsamakas","raw_affiliation_strings":["National Hellenic Research Foundation, Institute of Chemical Biology, Athens, Greece"],"affiliations":[{"raw_affiliation_string":"National Hellenic Research Foundation, Institute of Chemical Biology, Athens, Greece","institution_ids":["https://openalex.org/I4210127711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000396863","display_name":"Ioannis Gkekas","orcid":"https://orcid.org/0000-0002-7382-3636"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Ioannis Gkekas","raw_affiliation_strings":["Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044130307","display_name":"\u039a\u03ce\u03c3\u03c4\u03b1\u03c2 \u03a3\u03c4\u03b1\u03bc\u03b1\u03c4\u03cc\u03c0\u03bf\u03c5\u03bb\u03bf\u03c2","orcid":"https://orcid.org/0000-0001-8529-640X"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Kostas Stamatopoulos","raw_affiliation_strings":["Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025718299","display_name":"Spyros Petrakis","orcid":"https://orcid.org/0000-0001-9094-3480"},"institutions":[{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Spyros Petrakis","raw_affiliation_strings":["Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Institute of Applied Biosciences, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210134249"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071585254","display_name":"Petros Daras","orcid":"https://orcid.org/0000-0003-3814-6710"},"institutions":[{"id":"https://openalex.org/I4210093649","display_name":"Information Technologies Institute","ror":"https://ror.org/0069akp70","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093649"]},{"id":"https://openalex.org/I4210134249","display_name":"Centre for Research and Technology Hellas","ror":"https://ror.org/03bndpq63","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210134249"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Petros Daras","raw_affiliation_strings":["Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece"],"affiliations":[{"raw_affiliation_string":"Centre for Research and Technology Hellas, Information Technologies Institute, Thessaloniki, Greece","institution_ids":["https://openalex.org/I4210093649","https://openalex.org/I4210134249"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5046296679"],"corresponding_institution_ids":["https://openalex.org/I4210093649","https://openalex.org/I4210134249"],"apc_list":null,"apc_paid":null,"fwci":0.1445,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.56729714,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"132","last_page":"139"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9757000207901001,"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"}},{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9355999827384949,"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/virtual-screening","display_name":"Virtual screening","score":0.8064090013504028},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.7186231017112732},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6957368850708008},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6706708073616028},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.646935224533081},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.5783207416534424},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5400150418281555},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4074227511882782},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3257790207862854},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1891942322254181},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09337940812110901}],"concepts":[{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.8064090013504028},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.7186231017112732},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6957368850708008},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6706708073616028},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.646935224533081},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.5783207416534424},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5400150418281555},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4074227511882782},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3257790207862854},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1891942322254181},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09337940812110901},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibe50027.2020.00030","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe50027.2020.00030","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE 20th International Conference on Bioinformatics and Bioengineering (BIBE)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.800000011920929,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"},{"id":"https://openalex.org/F4320327859","display_name":"Hellenic Foundation for Research and Innovation","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":55,"referenced_works":["https://openalex.org/W1522301498","https://openalex.org/W1832385088","https://openalex.org/W1968319881","https://openalex.org/W1980621088","https://openalex.org/W1984476711","https://openalex.org/W1993285168","https://openalex.org/W2001002027","https://openalex.org/W2002368219","https://openalex.org/W2028629022","https://openalex.org/W2056179306","https://openalex.org/W2069126953","https://openalex.org/W2102377211","https://openalex.org/W2134967712","https://openalex.org/W2148512505","https://openalex.org/W2154662590","https://openalex.org/W2169117658","https://openalex.org/W2169678694","https://openalex.org/W2194775991","https://openalex.org/W2214665483","https://openalex.org/W2274656763","https://openalex.org/W2345062947","https://openalex.org/W2526925775","https://openalex.org/W2540540415","https://openalex.org/W2583907533","https://openalex.org/W2594183968","https://openalex.org/W2742081931","https://openalex.org/W2894566366","https://openalex.org/W2894601800","https://openalex.org/W2921262115","https://openalex.org/W2964121744","https://openalex.org/W2964819359","https://openalex.org/W2999364275","https://openalex.org/W3005669732","https://openalex.org/W3012189167","https://openalex.org/W3012550011","https://openalex.org/W3013093478","https://openalex.org/W3013800395","https://openalex.org/W3014067025","https://openalex.org/W3014128886","https://openalex.org/W3014714014","https://openalex.org/W3014852814","https://openalex.org/W3021694738","https://openalex.org/W3025939362","https://openalex.org/W3028150695","https://openalex.org/W3031594312","https://openalex.org/W3041591475","https://openalex.org/W3089645616","https://openalex.org/W3100704554","https://openalex.org/W3104705366","https://openalex.org/W4232814565","https://openalex.org/W6631190155","https://openalex.org/W6688357764","https://openalex.org/W6773804740","https://openalex.org/W6775565571","https://openalex.org/W6783362565"],"related_works":["https://openalex.org/W3180887190","https://openalex.org/W2059230675","https://openalex.org/W2376003823","https://openalex.org/W4226493464","https://openalex.org/W3133861977","https://openalex.org/W4402273478","https://openalex.org/W2594726310","https://openalex.org/W2951211570","https://openalex.org/W3103566983","https://openalex.org/W2355193834"],"abstract_inverted_index":{"Drug":[0],"discovery":[1,90],"involves":[2],"extremely":[3],"costly":[4],"and":[5,9],"time":[6],"consuming":[7],"procedures":[8],"can":[10],"be":[11],"significantly":[12],"benefited":[13],"by":[14],"computational":[15],"approaches,":[16],"such":[17],"as":[18],"virtual":[19],"screening":[20],"(VS).":[21],"Structure-based":[22],"VS":[23,83],"relies":[24],"on":[25,39,65,87,106,124,148],"scoring":[26,62,103],"functions":[27,63],"which":[28,70,112],"aim":[29],"to":[30,57,158],"evaluate":[31],"the":[32,44,48,51,58,97,107,115,125,149,162],"binding":[33],"of":[34,50,60,96,152],"a":[35,40,100,156],"candidate":[36],"compound":[37],"(ligand)":[38],"protein":[41],"target.":[42],"Over":[43],"last":[45],"few":[46],"years,":[47],"advancement":[49],"deep":[52],"learning":[53],"field":[54],"has":[55,129],"led":[56],"development":[59],"novel":[61],"based":[64,105],"convolutional":[66],"neural":[67],"networks":[68],"(CNN),":[69],"have":[71],"achieved":[72],"state-of-the-art":[73],"results.":[74],"In":[75],"this":[76],"paper,":[77],"we":[78],"present":[79],"an":[80],"integrated":[81],"end-to-end":[82],"pipeline":[84,144],"for":[85,161],"application":[86],"real-world":[88],"drug":[89],"scenarios.":[91],"It":[92],"combines":[93],"multiple":[94],"conformations":[95],"ligand":[98],"with":[99],"new":[101],"CNN":[102],"function":[104],"ResNet":[108],"architecture,":[109],"called":[110],"ResNetVS,":[111],"incorporates":[113],"also":[114],"docking":[116],"output":[117],"score":[118],"in":[119,134,155],"its":[120],"evaluation.":[121],"After":[122],"experiments":[123],"DUD-E":[126],"dataset,":[127],"it":[128,138],"shown":[130],"notable":[131],"performance,":[132],"especially":[133],"early":[135],"enrichment,":[136],"where":[137],"overcomes":[139],"current":[140],"benchmarks.":[141],"The":[142],"proposed":[143],"is":[145],"finally":[146],"applied":[147],"emerging":[150],"case":[151],"COVID-19":[153],"pandemic,":[154],"struggle":[157],"discover":[159],"inhibitors":[160],"viral":[163],"spike":[164],"protein-ACE2":[165],"interaction.":[166]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
