{"id":"https://openalex.org/W2103396045","doi":"https://doi.org/10.1186/1758-2946-3-52","title":"Automated annotation of chemical names in the literature with tunable accuracy","display_name":"Automated annotation of chemical names in the literature with tunable accuracy","publication_year":2011,"publication_date":"2011-11-22","ids":{"openalex":"https://openalex.org/W2103396045","doi":"https://doi.org/10.1186/1758-2946-3-52","mag":"2103396045","pmid":"https://pubmed.ncbi.nlm.nih.gov/22107874"},"language":"en","primary_location":{"id":"doi:10.1186/1758-2946-3-52","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-3-52","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-3-52","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/10.1186/1758-2946-3-52","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003918670","display_name":"Jun D Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jun D Zhang","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Department of Health and Human Services, 8600 Rockville Pike, Bethesda, MD 20894, USA. lewis.geer@nih.gov","National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Department of Health and Human Services, 8600 Rockville Pike, Bethesda, MD 20894, USA. lewis.geer@nih.gov","institution_ids":[]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040420615","display_name":"Lewis Y. Geer","orcid":"https://orcid.org/0000-0001-8189-3821"},"institutions":[{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lewis Y Geer","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015494748","display_name":"Evan Bolton","orcid":"https://orcid.org/0000-0002-5959-6190"},"institutions":[{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Evan E Bolton","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040349721","display_name":"Stephen H. Bryant","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephen H Bryant","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD, 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, Department of Health and Human Services, National Institutes of Health, Bethesda, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5003918670"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"],"apc_list":{"value":1290,"currency":"GBP","value_usd":1582},"apc_paid":{"value":1290,"currency":"GBP","value_usd":1582},"fwci":0.3991,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.63072157,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"3","issue":"1","first_page":"52","last_page":"52"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9995999932289124,"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"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9995999932289124,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9919000267982483,"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/T13083","display_name":"Advanced Text Analysis Techniques","score":0.977400004863739,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.8995108604431152},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7779837250709534},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.7140259146690369},{"id":"https://openalex.org/keywords/relevance","display_name":"Relevance (law)","score":0.5928634405136108},{"id":"https://openalex.org/keywords/chemical-database","display_name":"Chemical database","score":0.4767133593559265},{"id":"https://openalex.org/keywords/scientific-literature","display_name":"Scientific literature","score":0.4518919289112091},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.44543907046318054},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.4362577795982361},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.260938823223114},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.16579073667526245},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.077882319688797}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8995108604431152},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7779837250709534},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.7140259146690369},{"id":"https://openalex.org/C158154518","wikidata":"https://www.wikidata.org/wiki/Q7310970","display_name":"Relevance (law)","level":2,"score":0.5928634405136108},{"id":"https://openalex.org/C203394866","wikidata":"https://www.wikidata.org/wiki/Q2881060","display_name":"Chemical database","level":2,"score":0.4767133593559265},{"id":"https://openalex.org/C2781083858","wikidata":"https://www.wikidata.org/wiki/Q17327049","display_name":"Scientific literature","level":2,"score":0.4518919289112091},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.44543907046318054},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.4362577795982361},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.260938823223114},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.16579073667526245},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.077882319688797},{"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/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/1758-2946-3-52","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-3-52","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-3-52","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:22107874","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22107874","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:doaj.org/article:65617b480a554b4b8c7a4078761ba895","is_oa":true,"landing_page_url":"https://doaj.org/article/65617b480a554b4b8c7a4078761ba895","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Cheminformatics, Vol 3, Iss 1, p 52 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3281788","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3281788","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"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:10.1186/1758-2946-3-52","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1758-2946-3-52","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/1758-2946-3-52","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":[{"display_name":"Responsible consumption and production","score":0.5699999928474426,"id":"https://metadata.un.org/sdg/12"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2103396045.pdf","grobid_xml":"https://content.openalex.org/works/W2103396045.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W28860565","https://openalex.org/W77347155","https://openalex.org/W90362830","https://openalex.org/W1490056294","https://openalex.org/W1524134026","https://openalex.org/W1578560356","https://openalex.org/W1601495365","https://openalex.org/W1991618458","https://openalex.org/W2049240985","https://openalex.org/W2049427959","https://openalex.org/W2085170298","https://openalex.org/W2095596879","https://openalex.org/W2115964835","https://openalex.org/W2121244856","https://openalex.org/W2130160813","https://openalex.org/W2152317795","https://openalex.org/W2160171761","https://openalex.org/W2165671627","https://openalex.org/W2170876339","https://openalex.org/W2463328389","https://openalex.org/W2587282545","https://openalex.org/W2977393556","https://openalex.org/W4210483668"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W4380994516","https://openalex.org/W2556260348"],"abstract_inverted_index":{"Accurate":[0],"chemical":[1,11,23,54],"name":[2],"annotation":[3],"can":[4,48],"help":[5],"researchers":[6],"not":[7,36],"only":[8],"identify":[9],"important":[10],"names":[12],"in":[13],"abstracts,":[14],"but":[15,32],"also":[16],"match":[17],"unindexed":[18],"and":[19,41,58,68],"unstructured":[20],"abstracts":[21],"to":[22,38,51],"records.":[24],"The":[25],"current":[26],"work":[27],"is":[28,35,43],"tested":[29],"against":[30],"MEDLINE,":[31],"the":[33,46],"algorithm":[34,47],"specific":[37],"this":[39],"corpus":[40],"it":[42],"possible":[44],"that":[45],"be":[49],"applied":[50],"papers":[52],"from":[53],"physics,":[55],"material,":[56],"polymer":[57],"environmental":[59],"science,":[60],"as":[61,63],"well":[62],"patents,":[64],"biological":[65],"assay":[66],"descriptions":[67],"other":[69],"textual":[70],"data.":[71]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
