{"id":"https://openalex.org/W2018774810","doi":"https://doi.org/10.1021/ci300283a","title":"Searching for Substructures in Fragment Spaces","display_name":"Searching for Substructures in Fragment Spaces","publication_year":2012,"publication_date":"2012-12-03","ids":{"openalex":"https://openalex.org/W2018774810","doi":"https://doi.org/10.1021/ci300283a","mag":"2018774810","pmid":"https://pubmed.ncbi.nlm.nih.gov/23205736"},"language":"en","primary_location":{"id":"doi:10.1021/ci300283a","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci300283a","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/A5072560776","display_name":"Hans\u2010Christian Ehrlich","orcid":"https://orcid.org/0000-0001-5866-5433"},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Hans-Christian Ehrlich","raw_affiliation_strings":["University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany","institution_ids":["https://openalex.org/I159176309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057416678","display_name":"Andrea Volkamer","orcid":"https://orcid.org/0000-0002-3760-580X"},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Andrea Volkamer","raw_affiliation_strings":["University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany","institution_ids":["https://openalex.org/I159176309"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083205378","display_name":"Matthias Rarey","orcid":"https://orcid.org/0000-0002-9553-6531"},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Matthias Rarey","raw_affiliation_strings":["University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Hamburg, Bundestra\u00dfe 43, 20146 Hamburg, Germany","institution_ids":["https://openalex.org/I159176309"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5083205378"],"corresponding_institution_ids":["https://openalex.org/I159176309"],"apc_list":null,"apc_paid":null,"fwci":1.042,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.77021672,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"52","issue":"12","first_page":"3181","last_page":"3189"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9897000193595886,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9560999870300293,"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/fragment","display_name":"Fragment (logic)","score":0.8428659439086914},{"id":"https://openalex.org/keywords/pubchem","display_name":"PubChem","score":0.7762093544006348},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6852868795394897},{"id":"https://openalex.org/keywords/combinatorial-explosion","display_name":"Combinatorial explosion","score":0.5625201463699341},{"id":"https://openalex.org/keywords/enumeration","display_name":"Enumeration","score":0.524594247341156},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4724082350730896},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.46335485577583313},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4528152048587799},{"id":"https://openalex.org/keywords/cheminformatics","display_name":"Cheminformatics","score":0.428687185049057},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34288841485977173},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3191491365432739},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.21486690640449524},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.17049545049667358},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.13912716507911682},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.11470577120780945},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07731515169143677}],"concepts":[{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.8428659439086914},{"id":"https://openalex.org/C158180186","wikidata":"https://www.wikidata.org/wiki/Q278487","display_name":"PubChem","level":2,"score":0.7762093544006348},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6852868795394897},{"id":"https://openalex.org/C115908005","wikidata":"https://www.wikidata.org/wiki/Q2668364","display_name":"Combinatorial explosion","level":2,"score":0.5625201463699341},{"id":"https://openalex.org/C156340839","wikidata":"https://www.wikidata.org/wiki/Q2704791","display_name":"Enumeration","level":2,"score":0.524594247341156},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4724082350730896},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.46335485577583313},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4528152048587799},{"id":"https://openalex.org/C68762167","wikidata":"https://www.wikidata.org/wiki/Q910164","display_name":"Cheminformatics","level":2,"score":0.428687185049057},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34288841485977173},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3191491365432739},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.21486690640449524},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.17049545049667358},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.13912716507911682},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.11470577120780945},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07731515169143677},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","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},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"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":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D047428","descriptor_name":"Protein Kinase Inhibitors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/ci300283a","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci300283a","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:23205736","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23205736","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":[{"display_name":"Good health and well-being","score":0.6399999856948853,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W163923738","https://openalex.org/W341208967","https://openalex.org/W1475322720","https://openalex.org/W1563566554","https://openalex.org/W1578639442","https://openalex.org/W1595350250","https://openalex.org/W1910918478","https://openalex.org/W1979278760","https://openalex.org/W1979868386","https://openalex.org/W1988037271","https://openalex.org/W1990567988","https://openalex.org/W1991286793","https://openalex.org/W2002055996","https://openalex.org/W2009357736","https://openalex.org/W2012943500","https://openalex.org/W2013896592","https://openalex.org/W2016004960","https://openalex.org/W2022476850","https://openalex.org/W2026800167","https://openalex.org/W2027162181","https://openalex.org/W2030061504","https://openalex.org/W2030934523","https://openalex.org/W2031372687","https://openalex.org/W2031671513","https://openalex.org/W2038702914","https://openalex.org/W2040948463","https://openalex.org/W2051650468","https://openalex.org/W2052633277","https://openalex.org/W2052933929","https://openalex.org/W2054934319","https://openalex.org/W2073067110","https://openalex.org/W2077440882","https://openalex.org/W2078882389","https://openalex.org/W2092626093","https://openalex.org/W2096725584","https://openalex.org/W2102913801","https://openalex.org/W2126359798","https://openalex.org/W2147405597","https://openalex.org/W2153657185","https://openalex.org/W2176516200","https://openalex.org/W2913747137","https://openalex.org/W4210483668","https://openalex.org/W4319704957"],"related_works":["https://openalex.org/W2460225311","https://openalex.org/W1980425862","https://openalex.org/W3012362343","https://openalex.org/W3018299999","https://openalex.org/W3009346573","https://openalex.org/W2079781933","https://openalex.org/W3018504856","https://openalex.org/W3011653581","https://openalex.org/W1862448690","https://openalex.org/W3042122585"],"abstract_inverted_index":{"A":[0],"common":[1],"task":[2],"in":[3,120,178,184,194],"drug":[4,153],"development":[5],"is":[6,33,99,115,127],"the":[7,37,46,63,72,78,89,157,163,173,195],"selection":[8],"of":[9,40,45,48,55,65,80,92,96,159,165],"compounds":[10,191],"fulfilling":[11],"specific":[12],"structural":[13,81],"features":[14,82],"from":[15],"a":[16,112,160,169],"large":[17,66],"data":[18,28,68],"pool.":[19],"While":[20],"several":[21],"methods":[22],"that":[23,114],"iteratively":[24],"search":[25,75],"through":[26],"such":[27],"sets":[29,69],"exist,":[30],"their":[31,59],"application":[32],"limited":[34],"compared":[35],"to":[36,88,103,117,141],"infinite":[38],"character":[39],"molecular":[41,56,170],"space.":[42],"The":[43,145],"introduction":[44],"concept":[47],"fragment":[49,142],"spaces":[50],"(FSs),":[51],"which":[52,198],"are":[53],"composed":[54],"fragments":[57,138],"and":[58,107,134,172,186],"connection":[60],"rules,":[61],"made":[62],"representation":[64],"combinatorial":[67,90],"feasible.":[70],"At":[71],"same":[73],"time,":[74],"algorithms":[76],"face":[77],"problem":[79],"spanning":[83],"over":[84],"multiple":[85],"fragments.":[86],"Due":[87],"nature":[91],"FSs,":[93],"an":[94],"enumeration":[95],"all":[97],"products":[98,188],"impossible.":[100],"In":[101],"order":[102],"overcome":[104],"these":[105],"time":[106],"storage":[108],"issues,":[109],"we":[110],"present":[111,193],"method":[113,146],"able":[116],"find":[118],"substructures":[119,131],"FSs":[121,180],"without":[122],"explicit":[123],"product":[124],"enumeration.":[125],"This":[126],"accomplished":[128],"by":[129],"splitting":[130],"into":[132],"subsubstructures":[133],"mapping":[135],"them":[136],"onto":[137],"with":[139],"respect":[140],"connectivity":[143],"rules.":[144],"has":[147],"been":[148],"evaluated":[149],"on":[150],"three":[151],"different":[152],"discovery":[154],"scenarios":[155],"considering":[156],"exploration":[158],"molecule":[161],"class,":[162],"elaboration":[164],"decoration":[166],"patterns":[167],"for":[168,176,203],"core,":[171],"exhaustive":[174],"query":[175],"peptides":[177],"FSs.":[179],"can":[181],"be":[182],"searched":[183],"seconds,":[185],"found":[187],"contain":[189],"novel":[190],"not":[192],"PubChem":[196],"database":[197],"may":[199],"serve":[200],"as":[201],"hints":[202],"new":[204],"lead":[205],"structures.":[206]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2013,"cited_by_count":3}],"updated_date":"2026-06-16T09:24:06.705377","created_date":"2025-10-10T00:00:00"}
