{"id":"https://openalex.org/W2049224142","doi":"https://doi.org/10.1021/ci9001102","title":"Finding Key Members in Compound Libraries by Analyzing Networks of Molecules Assembled by Structural Similarity","display_name":"Finding Key Members in Compound Libraries by Analyzing Networks of Molecules Assembled by Structural Similarity","publication_year":2009,"publication_date":"2009-10-30","ids":{"openalex":"https://openalex.org/W2049224142","doi":"https://doi.org/10.1021/ci9001102","mag":"2049224142","pmid":"https://pubmed.ncbi.nlm.nih.gov/19877594"},"language":"en","primary_location":{"id":"doi:10.1021/ci9001102","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci9001102","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/A5043919795","display_name":"Zsolt Lepp","orcid":null},"institutions":[{"id":"https://openalex.org/I206011266","display_name":"Kwansei Gakuin University","ror":"https://ror.org/02qf2tx24","country_code":"JP","type":"education","lineage":["https://openalex.org/I206011266"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Zsolt Lepp","raw_affiliation_strings":["Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University","institution_ids":["https://openalex.org/I206011266"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052505792","display_name":"Chunfei Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I206011266","display_name":"Kwansei Gakuin University","ror":"https://ror.org/02qf2tx24","country_code":"JP","type":"education","lineage":["https://openalex.org/I206011266"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Chunfei Huang","raw_affiliation_strings":["Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University","institution_ids":["https://openalex.org/I206011266"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064919780","display_name":"Takashi Okada","orcid":"https://orcid.org/0000-0002-2910-3797"},"institutions":[{"id":"https://openalex.org/I206011266","display_name":"Kwansei Gakuin University","ror":"https://ror.org/02qf2tx24","country_code":"JP","type":"education","lineage":["https://openalex.org/I206011266"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Takashi Okada","raw_affiliation_strings":["Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemical Biology Department, Riken ASI, College of Computer Science and Technology, Jilin University, and Kwansei Gakuin University","institution_ids":["https://openalex.org/I206011266"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5043919795"],"corresponding_institution_ids":["https://openalex.org/I206011266"],"apc_list":null,"apc_paid":null,"fwci":1.7359,"has_fulltext":false,"cited_by_count":24,"citation_normalized_percentile":{"value":0.84124347,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"49","issue":"11","first_page":"2429","last_page":"2443"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9997000098228455,"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":0.9997000098228455,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9546999931335449,"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/T10908","display_name":"Analytical Chemistry and Chromatography","score":0.9501000046730042,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.7893050909042358},{"id":"https://openalex.org/keywords/structural-similarity","display_name":"Structural similarity","score":0.6409299969673157},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5849885940551758},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40467262268066406},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3703984022140503},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3702659010887146},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.33036506175994873},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1370801329612732},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12778255343437195},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.06523320078849792}],"concepts":[{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.7893050909042358},{"id":"https://openalex.org/C139489369","wikidata":"https://www.wikidata.org/wiki/Q770846","display_name":"Structural similarity","level":2,"score":0.6409299969673157},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5849885940551758},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40467262268066406},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3703984022140503},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3702659010887146},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.33036506175994873},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1370801329612732},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12778255343437195},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.06523320078849792},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D015394","descriptor_name":"Molecular Structure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015394","descriptor_name":"Molecular Structure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015394","descriptor_name":"Molecular Structure","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/ci9001102","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci9001102","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:19877594","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19877594","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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W120264976","https://openalex.org/W1529898704","https://openalex.org/W1531524766","https://openalex.org/W1592356192","https://openalex.org/W1595358836","https://openalex.org/W1758395617","https://openalex.org/W1862448690","https://openalex.org/W1968996837","https://openalex.org/W1979335751","https://openalex.org/W1992969994","https://openalex.org/W1993595743","https://openalex.org/W2005008560","https://openalex.org/W2008376161","https://openalex.org/W2013520570","https://openalex.org/W2028500117","https://openalex.org/W2031450165","https://openalex.org/W2041620837","https://openalex.org/W2050870337","https://openalex.org/W2050877276","https://openalex.org/W2058032170","https://openalex.org/W2071678676","https://openalex.org/W2092581985","https://openalex.org/W2107749303","https://openalex.org/W2135896045","https://openalex.org/W2136850043","https://openalex.org/W2147824439","https://openalex.org/W2153341679","https://openalex.org/W2159310376","https://openalex.org/W2162011385","https://openalex.org/W2498752956","https://openalex.org/W4237095724","https://openalex.org/W4256259619"],"related_works":["https://openalex.org/W4292296636","https://openalex.org/W1963790256","https://openalex.org/W2090768198","https://openalex.org/W4206415530","https://openalex.org/W2383633458","https://openalex.org/W3194411068","https://openalex.org/W2042007894","https://openalex.org/W2105075449","https://openalex.org/W22579956","https://openalex.org/W2114617504"],"abstract_inverted_index":{"Characterization":[0],"of":[1,18,28,46,70,76,117,160,182,199,211,216,228,248,261],"chemical":[2,221],"libraries":[3,222],"is":[4,255],"an":[5],"essential":[6],"task":[7],"in":[8,101,257],"everyday":[9],"chemoinformatics":[10],"practice.":[11],"This":[12],"study":[13],"describes":[14],"some":[15,107,179],"potential":[16],"uses":[17],"network":[19,240],"visualization":[20,241],"and":[21,80,86,121,163,217],"analysis":[22],"methods":[23,57,83,126],"to":[24,59,98,128,156,192,202,237],"identify":[25,129,172,203],"distinguished":[26],"members":[27],"compound":[29],"libraries.":[30],"Molecules":[31],"were":[32,49,104,152],"ordered":[33],"into":[34,135],"networks":[35,48,250],"by":[36,41,114,142,167],"their":[37],"structural":[38],"similarity":[39,62],"defined":[40],"molecular":[42,249],"fingerprints.":[43],"Various":[44],"properties":[45],"such":[47],"examined.":[50],"It":[51,111],"was":[52,112],"shown,":[53],"that":[54,124,151,170,174],"the":[55,61,68,73,78,81,92,102,115,125,143,153,157,183,197,212,226,229,238,245,258,262],"correlation":[56],"used":[58,127],"calculate":[60],"between":[63,178],"two":[64,136],"structures":[65,150,177],"radically":[66],"determined":[67,105],"topology":[69],"networks.":[71],"From":[72],"same":[74],"set":[75],"molecules,":[77],"Russel-Rao":[79],"Baroni-Urbani":[82],"created":[84],"sparser":[85],"denser":[87],"networks,":[88],"respectively,":[89],"than":[90],"using":[91],"Tanimoto":[93],"method.":[94],"Central":[95],"nodes,":[96],"corresponding":[97],"central":[99,130],"compounds":[100],"libraries,":[103],"for":[106,214,264],"example":[108],"data":[109],"sets.":[110],"shown":[113],"case":[116],"adenosine":[118,194],"A1,":[119],"A2,":[120],"dual":[122,193],"antagonists":[123],"nodes":[131],"could":[132,147,171],"be":[133],"divided":[134],"groups:":[137],"(1)":[138],"centrality":[139],"methods,":[140],"exemplified":[141,166],"centroid":[144],"centrality,":[145,169],"which":[146,243],"pick":[148],"up":[149],"most":[154],"similar":[155],"largest":[158],"number":[159],"other":[161],"molecules":[162,173,204],"(2)":[164],"group,":[165],"betweenness":[168],"had":[175],"intermediate":[176],"homogeneous":[180],"subsets":[181],"library.":[184],"The":[185,253],"latter":[186],"method":[187,213],"gave":[188],"significantly":[189],"higher":[190],"ranks":[191],"antagonists,":[195],"hinting":[196],"suitability":[198],"this":[200],"measure":[201],"with":[205],"multiple":[206],"activities.":[207],"Some":[208],"practical":[209],"applications":[210],"clustering":[215],"sample":[218],"selection":[219],"from":[220],"are":[223],"presented.":[224],"In":[225],"frame":[227],"study,":[230],"a":[231],"Jchem":[232],"plug-in":[233,254],"has":[234],"been":[235],"developed":[236],"Cytoscape":[239],"software,":[242],"makes":[244],"visual":[246],"observation":[247],"more":[251],"convenient.":[252],"included":[256],"Supporting":[259],"Information":[260],"article":[263],"free":[265],"usage.":[266]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-06-15T08:34:33.830935","created_date":"2025-10-10T00:00:00"}
