{"id":"https://openalex.org/W4205220161","doi":"https://doi.org/10.1155/2022/9197606","title":"Molecular Docking for Ligand-Receptor Binding Process Based on Heterogeneous Computing","display_name":"Molecular Docking for Ligand-Receptor Binding Process Based on Heterogeneous Computing","publication_year":2022,"publication_date":"2022-01-10","ids":{"openalex":"https://openalex.org/W4205220161","doi":"https://doi.org/10.1155/2022/9197606"},"language":"en","primary_location":{"id":"doi:10.1155/2022/9197606","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2022/9197606","pdf_url":"https://downloads.hindawi.com/journals/sp/2022/9197606.pdf","source":{"id":"https://openalex.org/S166774750","display_name":"Scientific Programming","issn_l":"1058-9244","issn":["1058-9244","1875-919X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Scientific Programming","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://downloads.hindawi.com/journals/sp/2022/9197606.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100391359","display_name":"Jianhua Li","orcid":"https://orcid.org/0000-0002-5438-1529"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jianhua Li","raw_affiliation_strings":["School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002526473","display_name":"Guanlong Liu","orcid":"https://orcid.org/0000-0001-8651-6814"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guanlong Liu","raw_affiliation_strings":["School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087823196","display_name":"Zhiyuan Zhen","orcid":"https://orcid.org/0000-0002-5219-3700"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhiyuan Zhen","raw_affiliation_strings":["School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Engineering, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088699320","display_name":"Zihao Shen","orcid":"https://orcid.org/0000-0003-3531-060X"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zihao Shen","raw_affiliation_strings":["State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103257865","display_name":"Shiliang Li","orcid":"https://orcid.org/0000-0003-4414-237X"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shiliang Li","raw_affiliation_strings":["State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100688144","display_name":"Honglin Li","orcid":"https://orcid.org/0000-0003-2270-1900"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Honglin Li","raw_affiliation_strings":["State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China"],"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Bioreactor Engineering, Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China","institution_ids":["https://openalex.org/I143593769"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100391359"],"corresponding_institution_ids":["https://openalex.org/I143593769"],"apc_list":{"value":1800,"currency":"USD","value_usd":1800},"apc_paid":{"value":1800,"currency":"USD","value_usd":1800},"fwci":1.7527,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.85908851,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"2022","issue":null,"first_page":"1","last_page":"13"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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":0.9998999834060669,"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/T12534","display_name":"Protein Degradation and Inhibitors","score":0.9973000288009644,"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":0.991100013256073,"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/docking","display_name":"Docking (animal)","score":0.8292062282562256},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7370712757110596},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.6564593315124512},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.623565137386322},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.4522257447242737},{"id":"https://openalex.org/keywords/message-passing-interface","display_name":"Message Passing Interface","score":0.4197160303592682},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.38637062907218933},{"id":"https://openalex.org/keywords/message-passing","display_name":"Message passing","score":0.24192184209823608},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.12767907977104187}],"concepts":[{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.8292062282562256},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7370712757110596},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.6564593315124512},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.623565137386322},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.4522257447242737},{"id":"https://openalex.org/C166782233","wikidata":"https://www.wikidata.org/wiki/Q127879","display_name":"Message Passing Interface","level":3,"score":0.4197160303592682},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.38637062907218933},{"id":"https://openalex.org/C854659","wikidata":"https://www.wikidata.org/wiki/Q1859284","display_name":"Message passing","level":2,"score":0.24192184209823608},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.12767907977104187},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1155/2022/9197606","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2022/9197606","pdf_url":"https://downloads.hindawi.com/journals/sp/2022/9197606.pdf","source":{"id":"https://openalex.org/S166774750","display_name":"Scientific Programming","issn_l":"1058-9244","issn":["1058-9244","1875-919X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Scientific Programming","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:b8db528d0f3f483f9d685993b47dddc0","is_oa":true,"landing_page_url":"https://doaj.org/article/b8db528d0f3f483f9d685993b47dddc0","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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scientific Programming, Vol 2022 (2022)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1155/2022/9197606","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2022/9197606","pdf_url":"https://downloads.hindawi.com/journals/sp/2022/9197606.pdf","source":{"id":"https://openalex.org/S166774750","display_name":"Scientific Programming","issn_l":"1058-9244","issn":["1058-9244","1875-919X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Scientific Programming","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4205220161.pdf","grobid_xml":"https://content.openalex.org/works/W4205220161.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1653739410","https://openalex.org/W1800166884","https://openalex.org/W2006283486","https://openalex.org/W2010286440","https://openalex.org/W2020040806","https://openalex.org/W2039181331","https://openalex.org/W2039350725","https://openalex.org/W2042572511","https://openalex.org/W2051838840","https://openalex.org/W2057630513","https://openalex.org/W2065963893","https://openalex.org/W2069944571","https://openalex.org/W2073294374","https://openalex.org/W2092175995","https://openalex.org/W2105668062","https://openalex.org/W2120495983","https://openalex.org/W2121621209","https://openalex.org/W2126099392","https://openalex.org/W2126105956","https://openalex.org/W2127290087","https://openalex.org/W2134967712","https://openalex.org/W2135904340","https://openalex.org/W2142868265","https://openalex.org/W2144415315","https://openalex.org/W2169244518","https://openalex.org/W2346571805","https://openalex.org/W2408938162","https://openalex.org/W2464107291","https://openalex.org/W2756434695","https://openalex.org/W2888980102","https://openalex.org/W2932935282","https://openalex.org/W2945562209","https://openalex.org/W2989455327","https://openalex.org/W3001419568","https://openalex.org/W3006594788","https://openalex.org/W3023951486","https://openalex.org/W3028644900","https://openalex.org/W3089221400","https://openalex.org/W3120361527","https://openalex.org/W3146706848"],"related_works":["https://openalex.org/W2058965144","https://openalex.org/W2164382479","https://openalex.org/W98480971","https://openalex.org/W2150291671","https://openalex.org/W2027972911","https://openalex.org/W2499279132","https://openalex.org/W4200215346","https://openalex.org/W2023656250","https://openalex.org/W3120906118","https://openalex.org/W1514506556"],"abstract_inverted_index":{"Molecular":[0],"docking":[1,46,63,114,164,199,216,220,225],"aims":[2],"to":[3,70,72,121,133],"predict":[4],"possible":[5],"drug":[6],"candidates":[7],"for":[8,64,171,218,223],"many":[9,44],"diseases,":[10],"and":[11,33,94,126,135,156,200,209,221,257],"it":[12],"is":[13,29,37,119,131,246,258],"computationally":[14,150],"intensive.":[15],"Particularly,":[16],"in":[17,89,161,197,206,234,249],"simulating":[18],"the":[19,23,27,35,65,90,102,108,137,141,149,169,172,184,215,229,235,243],"ligand-receptor":[20,173],"binding":[21,24,66,174],"process,":[22,125],"pocket":[25],"of":[26,61,68,81,86,98,111,144,153,168,231,242],"receptor":[28,71],"divided":[30],"into":[31,39],"subcubes,":[32],"when":[34],"ligand":[36,69],"docked":[38],"all":[40],"cubes,":[41],"there":[42],"are":[43,49],"molecular":[45,62],"tasks,":[47],"which":[48],"extremely":[50],"time-consuming.":[51],"In":[52],"this":[53],"study,":[54],"we":[55],"propose":[56],"a":[57,83,95,113,127,162,179,189,211,253],"heterogeneous":[58],"parallel":[59,76,185,236,244],"scheme":[60,77],"process":[67,175],"accelerate":[73],"simulating.":[74],"The":[75,166,240],"includes":[78],"two":[79],"layers":[80],"parallelism,":[82,112,145],"coarse-grained":[84],"layer":[85,97,110,143],"parallelism":[87,99],"implemented":[88],"message-passing":[91],"interface":[92],"(MPI)":[93],"fine-grained":[96],"focused":[100],"on":[101,178,210,252],"graphics":[103],"processing":[104],"unit":[105],"(GPU).":[106],"At":[107],"coarse-grain":[109],"task":[115],"inside":[116],"one":[117,122],"lattice":[118],"assigned":[120],"unique":[123],"MPI":[124],"grouped":[128],"master-slave":[129],"mode":[130],"used":[132,233],"allocate":[134],"schedule":[136],"tasks.":[138],"Meanwhile,":[139],"at":[140],"fine-gained":[142],"GPU":[146],"accelerators":[147],"undertake":[148],"intensive":[151],"computing":[152],"scoring":[154],"functions":[155],"related":[157],"conformation":[158],"spatial":[159],"transformations":[160],"single":[163],"task.":[165],"results":[167],"experiments":[170],"show":[176],"that":[177,222],"multicore":[180],"server":[181],"with":[182],"GPUs":[183],"program":[186,237,245],"has":[187],"achieved":[188],"speedup":[190],"ratio":[191],"as":[192,194,201,203,228],"high":[193,202],"45":[195],"times":[196,205],"flexible":[198,219],"54.5":[204],"semiflexible":[207,224],"docking,":[208],"distributed":[212,254],"memory":[213,255],"system,":[214],"time":[217],"gradually":[226,238],"decrease":[227],"number":[230],"nodes":[232,251],"increases.":[239],"scalability":[241],"also":[247],"verified":[248],"multiple":[250],"system":[256],"approximately":[259],"linear.":[260]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":4}],"updated_date":"2025-11-16T23:07:24.559242","created_date":"2025-10-10T00:00:00"}
