{"id":"https://openalex.org/W2085421421","doi":"https://doi.org/10.1142/s0219720013430075","title":"BREADTH-FIRST SEARCH APPROACH TO ENUMERATION OF TREE-LIKE CHEMICAL COMPOUNDS","display_name":"BREADTH-FIRST SEARCH APPROACH TO ENUMERATION OF TREE-LIKE CHEMICAL COMPOUNDS","publication_year":2013,"publication_date":"2013-10-21","ids":{"openalex":"https://openalex.org/W2085421421","doi":"https://doi.org/10.1142/s0219720013430075","mag":"2085421421","pmid":"https://pubmed.ncbi.nlm.nih.gov/24372036"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720013430075","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720013430075","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/196770/1/S0219720013430075.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001431051","display_name":"Yang Zhao","orcid":"https://orcid.org/0000-0003-3637-6731"},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]},{"id":"https://openalex.org/I4399598384","display_name":"Kyoto University Institute for Chemical Research","ror":"https://ror.org/0349bbg69","country_code":null,"type":"facility","lineage":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"YANG ZHAO","raw_affiliation_strings":["Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan","institution_ids":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039138118","display_name":"Morihiro Hayashida","orcid":"https://orcid.org/0000-0001-7961-0175"},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]},{"id":"https://openalex.org/I4399598384","display_name":"Kyoto University Institute for Chemical Research","ror":"https://ror.org/0349bbg69","country_code":null,"type":"facility","lineage":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"MORIHIRO HAYASHIDA","raw_affiliation_strings":["Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan","institution_ids":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042338476","display_name":"Jindalertudomdee Jira","orcid":null},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]},{"id":"https://openalex.org/I4399598384","display_name":"Kyoto University Institute for Chemical Research","ror":"https://ror.org/0349bbg69","country_code":null,"type":"facility","lineage":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"JIRA JINDALERTUDOMDEE","raw_affiliation_strings":["Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan","institution_ids":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073738140","display_name":"Hiroshi Nagamochi","orcid":"https://orcid.org/0000-0002-8332-1517"},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"HIROSHI NAGAMOCHI","raw_affiliation_strings":["Department of Applied Mathematics and Physics, Graduate School of Informatics, Kyoto University, Yoshida Honmachi, Sakyo-ku, Kyoto 6068501, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Applied Mathematics and Physics, Graduate School of Informatics, Kyoto University, Yoshida Honmachi, Sakyo-ku, Kyoto 6068501, Japan","institution_ids":["https://openalex.org/I22299242"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016330265","display_name":"Tatsuya Akutsu","orcid":"https://orcid.org/0000-0001-9763-797X"},"institutions":[{"id":"https://openalex.org/I22299242","display_name":"Kyoto University","ror":"https://ror.org/02kpeqv85","country_code":"JP","type":"education","lineage":["https://openalex.org/I22299242"]},{"id":"https://openalex.org/I4399598384","display_name":"Kyoto University Institute for Chemical Research","ror":"https://ror.org/0349bbg69","country_code":null,"type":"facility","lineage":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"TATSUYA AKUTSU","raw_affiliation_strings":["Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 6110011, Japan","institution_ids":["https://openalex.org/I22299242","https://openalex.org/I4399598384"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.0936,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.79503673,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11","issue":"06","first_page":"1343007","last_page":"1343007"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9991999864578247,"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":0.9991999864578247,"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/T10908","display_name":"Analytical Chemistry and Chromatography","score":0.9649999737739563,"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"}},{"id":"https://openalex.org/T13297","display_name":"History and advancements in chemistry","score":0.944599986076355,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"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/enumeration","display_name":"Enumeration","score":0.9579359889030457},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6828199625015259},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5784923434257507},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.5114137530326843},{"id":"https://openalex.org/keywords/search-tree","display_name":"Search tree","score":0.483294278383255},{"id":"https://openalex.org/keywords/space","display_name":"Space (punctuation)","score":0.4498799741268158},{"id":"https://openalex.org/keywords/order","display_name":"Order (exchange)","score":0.42845430970191956},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.35874369740486145},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3455131947994232},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.2966538667678833},{"id":"https://openalex.org/keywords/search-algorithm","display_name":"Search algorithm","score":0.23557829856872559}],"concepts":[{"id":"https://openalex.org/C156340839","wikidata":"https://www.wikidata.org/wiki/Q2704791","display_name":"Enumeration","level":2,"score":0.9579359889030457},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6828199625015259},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5784923434257507},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.5114137530326843},{"id":"https://openalex.org/C207024777","wikidata":"https://www.wikidata.org/wiki/Q621673","display_name":"Search tree","level":3,"score":0.483294278383255},{"id":"https://openalex.org/C2778572836","wikidata":"https://www.wikidata.org/wiki/Q380933","display_name":"Space (punctuation)","level":2,"score":0.4498799741268158},{"id":"https://openalex.org/C182306322","wikidata":"https://www.wikidata.org/wiki/Q1779371","display_name":"Order (exchange)","level":2,"score":0.42845430970191956},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.35874369740486145},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3455131947994232},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.2966538667678833},{"id":"https://openalex.org/C125583679","wikidata":"https://www.wikidata.org/wiki/Q755673","display_name":"Search algorithm","level":2,"score":0.23557829856872559},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002626","descriptor_name":"Chemistry, Pharmaceutical","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002626","descriptor_name":"Chemistry, Pharmaceutical","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002626","descriptor_name":"Chemistry, Pharmaceutical","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D009930","descriptor_name":"Organic Chemicals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009930","descriptor_name":"Organic Chemicals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009930","descriptor_name":"Organic Chemicals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1142/s0219720013430075","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720013430075","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:24372036","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24372036","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 bioinformatics and computational biology","raw_type":null},{"id":"pmh:oai:repository.kulib.kyoto-u.ac.jp:2433/196770","is_oa":true,"landing_page_url":"http://hdl.handle.net/2433/196770","pdf_url":"https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/196770/1/S0219720013430075.pdf","source":{"id":"https://openalex.org/S4306401454","display_name":"Kyoto University Research Information Repository (Kyoto University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I22299242","host_organization_name":"Kyoto University","host_organization_lineage":["https://openalex.org/I22299242"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":{"id":"pmh:oai:repository.kulib.kyoto-u.ac.jp:2433/196770","is_oa":true,"landing_page_url":"http://hdl.handle.net/2433/196770","pdf_url":"https://repository.kulib.kyoto-u.ac.jp/dspace/bitstream/2433/196770/1/S0219720013430075.pdf","source":{"id":"https://openalex.org/S4306401454","display_name":"Kyoto University Research Information Repository (Kyoto University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I22299242","host_organization_name":"Kyoto University","host_organization_lineage":["https://openalex.org/I22299242"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8329175278","display_name":"\u69cb\u9020\u5217\u6319\u3068\u6700\u9069\u5316\u306b\u57fa\u3065\u304f\u5316\u5408\u7269\u3068\u4ee3\u8b1d\u30cd\u30c3\u30c8\u30ef\u30fc\u30af\u306e\u89e3\u6790\u6cd5","funder_award_id":"13J02920","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G8352445785","display_name":"An Approach to Novel Structural Design by Combining Discrete Methods and Kernel Methods","funder_award_id":"22240009","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2085421421.pdf","grobid_xml":"https://content.openalex.org/works/W2085421421.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W560846839","https://openalex.org/W1555889346","https://openalex.org/W1985644065","https://openalex.org/W2009507792","https://openalex.org/W2032179189","https://openalex.org/W2035753075","https://openalex.org/W2057452369","https://openalex.org/W2059789529","https://openalex.org/W2069858527","https://openalex.org/W2070643689","https://openalex.org/W2143799715","https://openalex.org/W2149076513","https://openalex.org/W2161723275","https://openalex.org/W2171271527","https://openalex.org/W2242788071","https://openalex.org/W4254018170","https://openalex.org/W4292929273"],"related_works":["https://openalex.org/W2782899930","https://openalex.org/W931334744","https://openalex.org/W3128587426","https://openalex.org/W2227684440","https://openalex.org/W2739550867","https://openalex.org/W2156833871","https://openalex.org/W2359807192","https://openalex.org/W2174962524","https://openalex.org/W2083751087","https://openalex.org/W2157743338"],"abstract_inverted_index":{"Molecular":[0],"enumeration":[1,33,41],"plays":[2],"a":[3,23,44],"basic":[4],"role":[5],"in":[6,31],"the":[7,95],"design":[8,38],"of":[9,60],"drugs,":[10],"which":[11],"has":[12],"been":[13],"studied":[14],"by":[15,127],"mathematicians,":[16],"computer":[17],"scientists,":[18],"and":[19,71,78,108,121,150],"chemists":[20],"for":[21],"quite":[22],"long":[24],"time.":[25],"Although":[26],"many":[27,117],"researchers":[28],"are":[29,86,133,148],"involved":[30],"developing":[32],"algorithms":[34],"specific":[35],"to":[36,47,50,73,93,111,135],"drug":[37],"systems,":[39],"molecular":[40,89,112],"is":[42],"still":[43],"hard":[45],"problem":[46],"date":[48],"due":[49],"its":[51],"exponentially":[52],"increasing":[53],"large":[54,96],"search":[55,97,129],"space":[56],"with":[57,79,137],"larger":[58],"number":[59],"atoms.":[61],"To":[62],"alleviate":[63],"this":[64],"defect,":[65],"we":[66,99],"propose":[67],"efficient":[68],"algorithms,":[69],"BfsSimEnum":[70,120],"BfsMulEnum":[72,122],"enumerate":[74,124],"tree-like":[75,125],"molecules":[76],"without":[77],"multiple":[80],"bonds,":[81],"respectively,":[82],"where":[83],"chemical":[84],"compounds":[85,126],"represented":[87],"as":[88,105],"graphs.":[90,114],"In":[91],"order":[92],"reduce":[94],"space,":[98],"adjust":[100],"some":[101],"important":[102],"concepts":[103],"such":[104],"left-heavy,":[106],"center-rooted,":[107],"normal":[109],"form":[110],"tree":[113],"Different":[115],"from":[116],"existing":[118,139],"approaches,":[119],"firstly":[123],"breadth-first":[128],"order.":[130],"Computational":[131],"experiments":[132],"performed":[134],"compare":[136],"several":[138],"methods.":[140],"The":[141],"results":[142],"suggest":[143],"that":[144],"our":[145],"proposed":[146],"methods":[147],"exact":[149],"more":[151],"efficient.":[152]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
