{"id":"https://openalex.org/W2216009228","doi":"https://doi.org/10.1021/ci060152z","title":"Noise Reduction Method for Molecular Interaction Energy:\u2009 Application to in Silico Drug Screening and in Silico Target Protein Screening","display_name":"Noise Reduction Method for Molecular Interaction Energy:\u2009 Application to in Silico Drug Screening and in Silico Target Protein Screening","publication_year":2006,"publication_date":"2006-07-28","ids":{"openalex":"https://openalex.org/W2216009228","doi":"https://doi.org/10.1021/ci060152z","mag":"2216009228","pmid":"https://pubmed.ncbi.nlm.nih.gov/16995738"},"language":"en","primary_location":{"id":"doi:10.1021/ci060152z","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci060152z","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","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/A5041695827","display_name":"Yoshifumi Fukunishi","orcid":"https://orcid.org/0000-0002-7264-250X"},"institutions":[{"id":"https://openalex.org/I4210104082","display_name":"Japan Biological Informatics Consortium","ror":"https://ror.org/01astg473","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I4210104082"]},{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Yoshifumi Fukunishi","raw_affiliation_strings":["Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan","institution_ids":["https://openalex.org/I4210104082","https://openalex.org/I73613424","https://openalex.org/I98285908"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112213172","display_name":"Satoru Kubota","orcid":null},"institutions":[{"id":"https://openalex.org/I4210104082","display_name":"Japan Biological Informatics Consortium","ror":"https://ror.org/01astg473","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I4210104082"]},{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Satoru Kubota","raw_affiliation_strings":["Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan","institution_ids":["https://openalex.org/I4210104082","https://openalex.org/I73613424","https://openalex.org/I98285908"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035143113","display_name":"Haruki Nakamura","orcid":"https://orcid.org/0000-0001-6690-5863"},"institutions":[{"id":"https://openalex.org/I4210104082","display_name":"Japan Biological Informatics Consortium","ror":"https://ror.org/01astg473","country_code":"JP","type":"nonprofit","lineage":["https://openalex.org/I4210104082"]},{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]},{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Haruki Nakamura","raw_affiliation_strings":["Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological Information Research Center (BIRC), National Institute of Advanced Industrial Science and Technology (AIST) and Japan Biological Information Research Center (JBIRC), Japan Biological Informatics Consortium (JBIC), 2-41-6, Aomi, Koto-ku, Tokyo 135-0064, Japan, and Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan","institution_ids":["https://openalex.org/I4210104082","https://openalex.org/I73613424","https://openalex.org/I98285908"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5041695827"],"corresponding_institution_ids":["https://openalex.org/I4210104082","https://openalex.org/I73613424","https://openalex.org/I98285908"],"apc_list":null,"apc_paid":null,"fwci":3.2318,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.922276,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"46","issue":"5","first_page":"2071","last_page":"2084"},"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9896000027656555,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9872000217437744,"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/in-silico","display_name":"In silico","score":0.967246949672699},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5935264229774475},{"id":"https://openalex.org/keywords/target-protein","display_name":"Target protein","score":0.5457358956336975},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.5034405589103699},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.4403787851333618},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.38625285029411316},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19024404883384705},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.1679263412952423},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0762663185596466},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.0702584981918335}],"concepts":[{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.967246949672699},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5935264229774475},{"id":"https://openalex.org/C2780430158","wikidata":"https://www.wikidata.org/wiki/Q7685902","display_name":"Target protein","level":3,"score":0.5457358956336975},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.5034405589103699},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.4403787851333618},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.38625285029411316},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19024404883384705},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1679263412952423},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0762663185596466},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0702584981918335},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/ci060152z","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci060152z","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:16995738","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16995738","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":"Journal of chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.7099999785423279,"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1966688905","https://openalex.org/W1968660933","https://openalex.org/W1970658820","https://openalex.org/W1983976007","https://openalex.org/W1984464695","https://openalex.org/W2002733813","https://openalex.org/W2007953805","https://openalex.org/W2008517160","https://openalex.org/W2022950330","https://openalex.org/W2025836226","https://openalex.org/W2029087609","https://openalex.org/W2037101819","https://openalex.org/W2041206203","https://openalex.org/W2042071104","https://openalex.org/W2050456292","https://openalex.org/W2052643996","https://openalex.org/W2067455153","https://openalex.org/W2068672372","https://openalex.org/W2069494674","https://openalex.org/W2074785621","https://openalex.org/W2078534481","https://openalex.org/W2099884809","https://openalex.org/W2114779636","https://openalex.org/W2131288855","https://openalex.org/W2167550841"],"related_works":["https://openalex.org/W4308805210","https://openalex.org/W2003194288","https://openalex.org/W2513589746","https://openalex.org/W2213189664","https://openalex.org/W2153919606","https://openalex.org/W2074002899","https://openalex.org/W2062254828","https://openalex.org/W4237480606","https://openalex.org/W2936968863","https://openalex.org/W1971792277"],"abstract_inverted_index":{"We":[0,76],"developed":[1],"a":[2,14,39,45,59,65,102],"new":[3],"method":[4,19],"to":[5,22,80,115],"improve":[6],"the":[7,24,53,82,85,96,99,107,120],"accuracy":[8],"of":[9,27,58,68,84,119,123],"molecular":[10,15],"interaction":[11,16],"data":[12],"using":[13,38],"matrix.":[17],"This":[18],"was":[20,51],"applied":[21,114],"enhance":[23],"database":[25],"enrichment":[26],"in":[28,33,116,128],"silico":[29,34,117,129],"drug":[30],"screening":[31,37,118],"and":[32,98,127],"target":[35,125,130],"protein":[36,131],"protein-compound":[40,46,54],"affinity":[41],"matrix":[42],"calculated":[43],"by":[44,64],"docking":[47,70],"software.":[48],"Our":[49],"assumption":[50],"that":[52],"binding":[55],"free":[56],"energy":[57],"compound":[60],"could":[61],"be":[62],"improved":[63],"linear":[66,86],"combination":[67],"its":[69],"scores":[71],"with":[72],"many":[73],"different":[74],"proteins.":[75],"proposed":[77],"two":[78],"approaches":[79],"determine":[81],"coefficients":[83],"combination.":[87],"The":[88],"first":[89],"approach":[90,104],"is":[91,101],"based":[92,105],"on":[93,106],"similarity":[94],"among":[95],"proteins,":[97],"second":[100],"machine-learning":[103],"known":[108],"active":[109,121],"compounds.":[110],"These":[111],"methods":[112],"were":[113],"compounds":[122],"several":[124],"proteins":[126],"screening.":[132]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
