{"id":"https://openalex.org/W1775897493","doi":"https://doi.org/10.1093/bioinformatics/btv373","title":"Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map","display_name":"Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map","publication_year":2015,"publication_date":"2015-06-17","ids":{"openalex":"https://openalex.org/W1775897493","doi":"https://doi.org/10.1093/bioinformatics/btv373","mag":"1775897493","pmid":"https://pubmed.ncbi.nlm.nih.gov/26088801"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv373","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/20/3392/49036211/bioinformatics_31_20_3392.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/20/3392/49036211/bioinformatics_31_20_3392.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079632405","display_name":"G\u00fcnter Klambauer","orcid":"https://orcid.org/0000-0003-2861-5552"},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"G\u00fcnter Klambauer","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045629133","display_name":"Martin Wischenbart","orcid":"https://orcid.org/0000-0002-0838-2993"},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Martin Wischenbart","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009682484","display_name":"Michael Mahr","orcid":null},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Michael Mahr","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083016682","display_name":"Thomas Unterthiner","orcid":"https://orcid.org/0000-0001-5361-3087"},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Thomas Unterthiner","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101889304","display_name":"Andreas Mayr","orcid":"https://orcid.org/0000-0002-1204-0881"},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Andreas Mayr","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053148274","display_name":"Sepp Hochreiter","orcid":"https://orcid.org/0000-0001-7449-2528"},"institutions":[{"id":"https://openalex.org/I121883995","display_name":"Johannes Kepler University of Linz","ror":"https://ror.org/052r2xn60","country_code":"AT","type":"education","lineage":["https://openalex.org/I121883995"]}],"countries":["AT"],"is_corresponding":true,"raw_author_name":"Sepp Hochreiter","raw_affiliation_strings":["Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, Johannes Kepler University Linz, Altenbergerstr. 69, 4040 Linz, Austria","institution_ids":["https://openalex.org/I121883995"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5053148274"],"corresponding_institution_ids":["https://openalex.org/I121883995"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.4704,"has_fulltext":false,"cited_by_count":22,"citation_normalized_percentile":{"value":0.89170017,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"31","issue":"20","first_page":"3392","last_page":"3394"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.8860999941825867,"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":0.8860999941825867,"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":0.039900001138448715,"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/T11948","display_name":"Machine Learning in Materials Science","score":0.005499999970197678,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/chembl","display_name":"chEMBL","score":0.9821780920028687},{"id":"https://openalex.org/keywords/drugbank","display_name":"DrugBank","score":0.8430084586143494},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7532687187194824},{"id":"https://openalex.org/keywords/web-service","display_name":"Web service","score":0.6930135488510132},{"id":"https://openalex.org/keywords/service","display_name":"Service (business)","score":0.5697088837623596},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.47504615783691406},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.43899255990982056},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.4339158833026886},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3303760290145874},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.2767319679260254},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.20461058616638184},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.09798139333724976},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.08754205703735352},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08147397637367249}],"concepts":[{"id":"https://openalex.org/C63222358","wikidata":"https://www.wikidata.org/wiki/Q6120337","display_name":"chEMBL","level":3,"score":0.9821780920028687},{"id":"https://openalex.org/C155261790","wikidata":"https://www.wikidata.org/wiki/Q1122544","display_name":"DrugBank","level":3,"score":0.8430084586143494},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7532687187194824},{"id":"https://openalex.org/C35578498","wikidata":"https://www.wikidata.org/wiki/Q193424","display_name":"Web service","level":2,"score":0.6930135488510132},{"id":"https://openalex.org/C2780378061","wikidata":"https://www.wikidata.org/wiki/Q25351891","display_name":"Service (business)","level":2,"score":0.5697088837623596},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.47504615783691406},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.43899255990982056},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.4339158833026886},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3303760290145874},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.2767319679260254},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.20461058616638184},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.09798139333724976},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.08754205703735352},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08147397637367249},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.0},{"id":"https://openalex.org/C136264566","wikidata":"https://www.wikidata.org/wiki/Q159810","display_name":"Economy","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":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btv373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv373","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/20/3392/49036211/bioinformatics_31_20_3392.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26088801","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26088801","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/20/3392","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/20/3392","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv373","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv373","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/20/3392/49036211/bioinformatics_31_20_3392.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5199999809265137,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W1775897493.pdf"},"referenced_works_count":21,"referenced_works":["https://openalex.org/W1980177098","https://openalex.org/W1988807132","https://openalex.org/W2007667104","https://openalex.org/W2018518196","https://openalex.org/W2026625220","https://openalex.org/W2028279608","https://openalex.org/W2053080554","https://openalex.org/W2081301924","https://openalex.org/W2096541451","https://openalex.org/W2098689079","https://openalex.org/W2107126369","https://openalex.org/W2109781356","https://openalex.org/W2118249480","https://openalex.org/W2120682915","https://openalex.org/W2121604817","https://openalex.org/W2136656278","https://openalex.org/W2150930396","https://openalex.org/W2155818154","https://openalex.org/W2156983744","https://openalex.org/W2167564939","https://openalex.org/W2183423684"],"related_works":["https://openalex.org/W2155958387","https://openalex.org/W2029912875","https://openalex.org/W2431109715","https://openalex.org/W203337256","https://openalex.org/W1775897493","https://openalex.org/W2894906875","https://openalex.org/W2557522098","https://openalex.org/W2887866551","https://openalex.org/W1980135139","https://openalex.org/W3021011016"],"abstract_inverted_index":{"UNLABELLED:":[0],"We":[1],"have":[2,54],"developed":[3],"Rchempp,":[4],"a":[5,81,84],"web":[6,82,107,159],"service":[7,20,108,160],"that":[8,139],"identifies":[9],"structurally":[10],"similar":[11],"compounds":[12,22,121],"(structural":[13],"analogs)":[14],"in":[15,26,103,135,152],"large-scale":[16],"molecule":[17,45],"databases.":[18,36],"The":[19,158],"allows":[21],"to":[23],"be":[24],"queried":[25],"the":[27,33,39,94,97,106,114,136,142,162],"widely":[28],"used":[29,134,149],"ChEMBL,":[30],"DrugBank":[31],"and":[32,62,75,146,161,170],"Connectivity":[34],"Map":[35],"Rchemcpp":[37,132],"utilizes":[38],"best":[40],"performing":[41],"similarity":[42,60],"functions,":[43],"i.e.":[44],"kernels,":[46],"as":[47,80,119],"measures":[48,61],"for":[49,113],"structural":[50],"similarity.":[51],"Molecule":[52],"kernels":[53],"proven":[55],"superior":[56],"performance":[57],"over":[58],"other":[59],"are":[63,165,179],"currently":[64],"excelling":[65],"at":[66,181],"machine":[67],"learning":[68],"challenges.":[69],"To":[70],"considerably":[71],"reduce":[72],"computational":[73],"time,":[74],"thereby":[76],"make":[77],"it":[78],"feasible":[79],"service,":[83],"novel":[85],"efficient":[86],"prefiltering":[87],"strategy":[88],"has":[89,140],"been":[90],"developed,":[91],"which":[92],"maintains":[93],"sensitivity":[95],"of":[96],"method.":[98],"By":[99],"exploiting":[100],"information":[101],"contained":[102],"public":[104],"databases,":[105],"facilitates":[109],"many":[110],"applications":[111],"crucial":[112],"drug":[115],"development":[116],"process,":[117],"such":[118],"prioritizing":[120],"after":[122],"screening":[123],"or":[124],"reducing":[125],"adverse":[126],"side":[127],"effects":[128],"during":[129],"late":[130],"phases.":[131],"was":[133],"DeepTox":[137],"pipeline":[138],"won":[141],"Tox21":[143],"Data":[144],"Challenge":[145],"is":[147],"frequently":[148],"by":[150],"researchers":[151],"pharmaceutical":[153],"companies.":[154],"AVAILABILITY":[155],"AND":[156],"IMPLEMENTATION:":[157],"R":[163],"package":[164],"freely":[166],"available":[167,180],"via":[168,171],"http://shiny.bioinf.jku.at/Analoging/":[169],"Bioconductor.":[172],"CONTACT:":[173],"hochreit@bioinf.jku.at":[174],"SUPPLEMENTARY":[175],"INFORMATION:":[176],"Supplementary":[177],"data":[178],"Bioinformatics":[182],"online.":[183]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":5},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2016,"cited_by_count":3}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
