{"id":"https://openalex.org/W2132320273","doi":"https://doi.org/10.1186/1758-2946-6-15","title":"On InChI and evaluating the quality of cross-reference links","display_name":"On InChI and evaluating the quality of cross-reference links","publication_year":2014,"publication_date":"2014-04-17","ids":{"openalex":"https://openalex.org/W2132320273","doi":"https://doi.org/10.1186/1758-2946-6-15","mag":"2132320273","pmid":"https://pubmed.ncbi.nlm.nih.gov/24742140"},"language":"en","primary_location":{"id":"doi:10.1186/1758-2946-6-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-6-15","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-6-15","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-6-15","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079524677","display_name":"Jakub Galgonek","orcid":"https://orcid.org/0000-0002-7038-544X"},"institutions":[{"id":"https://openalex.org/I202391551","display_name":"Czech Academy of Sciences","ror":"https://ror.org/053avzc18","country_code":"CZ","type":"government","lineage":["https://openalex.org/I202391551"]},{"id":"https://openalex.org/I4210145889","display_name":"Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry","ror":"https://ror.org/04nfjn472","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210145889"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Jakub Galgonek","raw_affiliation_strings":["Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10 Prague 6, Czech Republic","Institute of Organic Chemistry and Biochemistry Academy of Sciences of the Czech Republic Prague 6 Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10 Prague 6, Czech Republic","institution_ids":["https://openalex.org/I4210145889"]},{"raw_affiliation_string":"Institute of Organic Chemistry and Biochemistry Academy of Sciences of the Czech Republic Prague 6 Czech Republic","institution_ids":["https://openalex.org/I202391551"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031688867","display_name":"Ji\u0159\u0131\u0301 Vondr\u00e1\u0161ek","orcid":"https://orcid.org/0000-0002-6066-973X"},"institutions":[{"id":"https://openalex.org/I202391551","display_name":"Czech Academy of Sciences","ror":"https://ror.org/053avzc18","country_code":"CZ","type":"government","lineage":["https://openalex.org/I202391551"]},{"id":"https://openalex.org/I4210145889","display_name":"Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry","ror":"https://ror.org/04nfjn472","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210145889"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Ji\u0159\u00ed Vondr\u00e1\u0161ek","raw_affiliation_strings":["Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10 Prague 6, Czech Republic","Institute of Organic Chemistry and Biochemistry Academy of Sciences of the Czech Republic Prague 6 Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nam. 2, 166 10 Prague 6, Czech Republic","institution_ids":["https://openalex.org/I4210145889"]},{"raw_affiliation_string":"Institute of Organic Chemistry and Biochemistry Academy of Sciences of the Czech Republic Prague 6 Czech Republic","institution_ids":["https://openalex.org/I202391551"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5031688867","https://openalex.org/A5079524677"],"corresponding_institution_ids":["https://openalex.org/I202391551","https://openalex.org/I4210145889"],"apc_list":{"value":2190,"currency":"USD","value_usd":2190},"apc_paid":{"value":2190,"currency":"USD","value_usd":2190},"fwci":1.7455,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.85538199,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"6","issue":"1","first_page":"15","last_page":"15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.46950000524520874,"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":0.46950000524520874,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.33550000190734863,"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":0.054099999368190765,"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/identifier","display_name":"Identifier","score":0.9140653610229492},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8212497234344482},{"id":"https://openalex.org/keywords/completeness","display_name":"Completeness (order theory)","score":0.7496082782745361},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.7483565807342529},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.645382285118103},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5976285338401794},{"id":"https://openalex.org/keywords/unique-identifier","display_name":"Unique identifier","score":0.5515487194061279},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.38417816162109375},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16174504160881042},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.16138100624084473},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08461201190948486}],"concepts":[{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.9140653610229492},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8212497234344482},{"id":"https://openalex.org/C17231256","wikidata":"https://www.wikidata.org/wiki/Q5156540","display_name":"Completeness (order theory)","level":2,"score":0.7496082782745361},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.7483565807342529},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.645382285118103},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5976285338401794},{"id":"https://openalex.org/C119839945","wikidata":"https://www.wikidata.org/wiki/Q6545185","display_name":"Unique identifier","level":3,"score":0.5515487194061279},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.38417816162109375},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16174504160881042},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.16138100624084473},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08461201190948486},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/1758-2946-6-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-6-15","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-6-15","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},{"id":"pmid:24742140","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24742140","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 cheminformatics","raw_type":null},{"id":"pmh:oai:asep.lib.cas.cz:CavUnEpca/0429452","is_oa":false,"landing_page_url":"http://hdl.handle.net/11104/0234604","pdf_url":null,"source":{"id":"https://openalex.org/S7407055266","display_name":"ASEP","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:2987272","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC4005828","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:4005828","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4005828","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Cheminform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1758-2946-6-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-6-15","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-6-15","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6600000262260437,"display_name":"No poverty","id":"https://metadata.un.org/sdg/1"}],"awards":[{"id":"https://openalex.org/G2330370523","display_name":null,"funder_award_id":"Z40550506","funder_id":"https://openalex.org/F4320321005","funder_display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy"},{"id":"https://openalex.org/G409715620","display_name":"Systematic mapping of the conformational space of short peptides through molecular dynamics simulation - a way to understanding of protein structure formation.","funder_award_id":"LH11020","funder_id":"https://openalex.org/F4320321005","funder_display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy"},{"id":"https://openalex.org/G5427530342","display_name":null,"funder_award_id":"MSM6198959216","funder_id":"https://openalex.org/F4320321005","funder_display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy"}],"funders":[{"id":"https://openalex.org/F4320321005","display_name":"Ministerstvo \u0160kolstv\u00ed, Ml\u00e1de\u017ee a T\u011blov\u00fdchovy","ror":"https://ror.org/037n8p820"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2132320273.pdf","grobid_xml":"https://content.openalex.org/works/W2132320273.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1533059251","https://openalex.org/W1572194202","https://openalex.org/W1897792636","https://openalex.org/W1966509121","https://openalex.org/W2016455326","https://openalex.org/W2038702914","https://openalex.org/W2051810242","https://openalex.org/W2063028213","https://openalex.org/W2093418308","https://openalex.org/W2108492672","https://openalex.org/W2111005956","https://openalex.org/W2122709242","https://openalex.org/W2125904022","https://openalex.org/W2129370330","https://openalex.org/W2137052779","https://openalex.org/W2153037537","https://openalex.org/W2164164253","https://openalex.org/W3192290435"],"related_works":["https://openalex.org/W2413568490","https://openalex.org/W1913624564","https://openalex.org/W3130054399","https://openalex.org/W4301062032","https://openalex.org/W2343500026","https://openalex.org/W2319837024","https://openalex.org/W2033159440","https://openalex.org/W2390627310","https://openalex.org/W2413664130","https://openalex.org/W2051731675"],"abstract_inverted_index":{"BACKGROUND:":[0],"There":[1,210],"are":[2,146,211,225],"many":[3],"databases":[4,33],"of":[5,12,22,79,119,159,171,189,219,246],"small":[6],"molecules":[7],"focused":[8],"on":[9,47],"different":[10,32,96],"aspects":[11],"research":[13],"and":[14,77,102,203,217,242],"its":[15],"applications.":[16],"Some":[17],"tasks":[18],"may":[19],"require":[20],"integration":[21],"information":[23],"from":[24,31],"various":[25],"databases.":[26,66,134],"However,":[27,230],"determining":[28],"which":[29],"entries":[30,132],"represent":[34],"the":[35,59,75,80,88,120,138,142,151,161,172,183,190,200,204,215,243,247],"same":[36],"compound":[37],"is":[38,56],"not":[39],"straightforward.":[40],"Integration":[41],"can":[42,232],"be":[43,233],"based,":[44],"for":[45],"example,":[46],"automatically":[48,89,191],"generated":[49,90,192],"cross-reference":[50],"links":[51,62,83,145,175,222,241],"between":[52],"entries.":[53],"Another":[54],"approach":[55],"to":[57,73,98,129],"use":[58],"manually":[60,81,143,173,220,239],"curated":[61,82,144,174,221,240],"stored":[63],"directly":[64],"in":[65,106,117,133,141,150,167,182,214,238],"This":[67],"study":[68],"employs":[69],"well-established":[70],"InChI":[71,100,124,139,201,228,248],"identifiers":[72,101,125],"measure":[74],"consistency":[76,216],"completeness":[78,170,218],"by":[84,115,236],"comparing":[85],"them":[86],"with":[87,187,199],"ones.":[91],"RESULTS:":[92],"We":[93,135,195],"used":[94,127,206],"two":[95],"tools":[97,202],"generate":[99],"observed":[103,196],"some":[104],"ambiguities":[105,112],"their":[107,208],"outputs.":[108],"In":[109],"part,":[110],"these":[111],"were":[113,126,164],"caused":[114,234],"indistinctness":[116],"interpretation":[118],"structural":[121],"data":[122],"used.":[123],"successfully":[128],"find":[130],"duplicate":[131],"found":[136],"that":[137,188],"inconsistencies":[140],"very":[147,165,178],"high":[148,166],"(28.85%":[149],"worst":[152],"case).":[153],"Even":[154],"using":[155,227],"a":[156],"weaker":[157],"definition":[158],"consistency,":[160],"measured":[162,226],"values":[163],"general.":[168],"The":[169],"was":[176],"also":[177],"poor":[179],"(only":[180],"93.8%":[181],"best":[184],"case)":[185],"compared":[186],"links.":[193],"CONCLUSIONS:":[194],"several":[197],"problems":[198],"files":[205],"as":[207],"inputs.":[209],"large":[212],"gaps":[213],"if":[223],"they":[224],"identifiers.":[229],"inconsistency":[231],"both":[235],"errors":[237],"inherent":[244],"limitations":[245],"method.":[249]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
