{"id":"https://openalex.org/W4281293036","doi":"https://doi.org/10.1186/s13326-022-00271-7","title":"An annotated corpus of clinical trial publications supporting schema-based relational information extraction","display_name":"An annotated corpus of clinical trial publications supporting schema-based relational information extraction","publication_year":2022,"publication_date":"2022-05-23","ids":{"openalex":"https://openalex.org/W4281293036","doi":"https://doi.org/10.1186/s13326-022-00271-7","pmid":"https://pubmed.ncbi.nlm.nih.gov/35606797"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-022-00271-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-022-00271-7","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-022-00271-7","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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 Biomedical Semantics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-022-00271-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065966412","display_name":"Olivia Sanchez-Graillet","orcid":"https://orcid.org/0000-0003-3483-265X"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Olivia Sanchez-Graillet","raw_affiliation_strings":["Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany. olivia.sanchez@uni-bielefeld.de","Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany"],"affiliations":[{"raw_affiliation_string":"Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany. olivia.sanchez@uni-bielefeld.de","institution_ids":["https://openalex.org/I20121455"]},{"raw_affiliation_string":"Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany","institution_ids":["https://openalex.org/I20121455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054004325","display_name":"Christian Witte","orcid":"https://orcid.org/0000-0003-3023-7968"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christian Witte","raw_affiliation_strings":["Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany"],"affiliations":[{"raw_affiliation_string":"Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany","institution_ids":["https://openalex.org/I20121455"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088730772","display_name":"Frank Grimm","orcid":"https://orcid.org/0000-0002-7045-8055"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Frank Grimm","raw_affiliation_strings":["Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany"],"affiliations":[{"raw_affiliation_string":"Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany","institution_ids":["https://openalex.org/I20121455"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056086147","display_name":"Philipp Cimiano","orcid":"https://orcid.org/0000-0002-4771-441X"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Philipp Cimiano","raw_affiliation_strings":["Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany"],"affiliations":[{"raw_affiliation_string":"Semantic Computing Group, Cluster of Excellence Cognitive Interaction Technology (CITEC), Bielefeld University, Bielefeld, 33619, Germany","institution_ids":["https://openalex.org/I20121455"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5065966412"],"corresponding_institution_ids":["https://openalex.org/I20121455"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1081,"currency":"EUR","value_usd":1165},"fwci":0.7811,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.6873086,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"13","issue":"1","first_page":"14","last_page":"14"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994999766349792,"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":0.9994999766349792,"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/T10028","display_name":"Topic Modeling","score":0.9980000257492065,"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"}},{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","score":0.9945999979972839,"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/computer-science","display_name":"Computer science","score":0.8786326050758362},{"id":"https://openalex.org/keywords/schema","display_name":"Schema (genetic algorithms)","score":0.7379379272460938},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.637330174446106},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.5921033024787903},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.45076143741607666},{"id":"https://openalex.org/keywords/relational-database","display_name":"Relational database","score":0.41971835494041443},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4009658098220825},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.38392728567123413},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3411393165588379}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8786326050758362},{"id":"https://openalex.org/C52146309","wikidata":"https://www.wikidata.org/wiki/Q7431116","display_name":"Schema (genetic algorithms)","level":2,"score":0.7379379272460938},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.637330174446106},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.5921033024787903},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.45076143741607666},{"id":"https://openalex.org/C5655090","wikidata":"https://www.wikidata.org/wiki/Q192588","display_name":"Relational database","level":2,"score":0.41971835494041443},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4009658098220825},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.38392728567123413},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3411393165588379}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002986","descriptor_name":"Clinical Trials as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002986","descriptor_name":"Clinical Trials as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002986","descriptor_name":"Clinical Trials as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005901","descriptor_name":"Glaucoma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005901","descriptor_name":"Glaucoma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005901","descriptor_name":"Glaucoma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s13326-022-00271-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-022-00271-7","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-022-00271-7","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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 Biomedical Semantics","raw_type":"journal-article"},{"id":"pmid:35606797","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35606797","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 biomedical semantics","raw_type":null},{"id":"pmh:oai:doaj.org/article:33f0a5ba5b3749fb8cc7f5dfada8d531","is_oa":true,"landing_page_url":"https://doaj.org/article/33f0a5ba5b3749fb8cc7f5dfada8d531","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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Biomedical Semantics, Vol 13, Iss 1, Pp 1-18 (2022)","raw_type":"article"},{"id":"pmh:oai:pub.uni-bielefeld.de:2963538","is_oa":true,"landing_page_url":"https://pub.uni-bielefeld.de/record/2963538","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"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":"http://purl.org/coar/resource_type/c_6501"},{"id":"pmh:oai:pubmedcentral.nih.gov:9128209","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9128209","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 Biomed Semantics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13326-022-00271-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-022-00271-7","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-022-00271-7","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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 Biomedical Semantics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3619449010","display_name":null,"funder_award_id":"376059226 / SPP-1999","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G4263520340","display_name":null,"funder_award_id":"376059226","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5106512922","display_name":null,"funder_award_id":"Deutsche Forschungsgemeinschaft (DFG","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6024419964","display_name":null,"funder_award_id":"Deutsche Forschungsgemeinschaft (DFG)","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6052429835","display_name":null,"funder_award_id":"(DFG)","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8330397625","display_name":null,"funder_award_id":"Funding","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8928656450","display_name":null,"funder_award_id":"Projekt DEAL","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320323389","display_name":"Universit\u00e4t Bielefeld","ror":"https://ror.org/02hpadn98"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4281293036.pdf","grobid_xml":"https://content.openalex.org/works/W4281293036.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W150455679","https://openalex.org/W1574574070","https://openalex.org/W1577425432","https://openalex.org/W1833345659","https://openalex.org/W1965875998","https://openalex.org/W2053154970","https://openalex.org/W2053301680","https://openalex.org/W2067284187","https://openalex.org/W2097426580","https://openalex.org/W2134568263","https://openalex.org/W2164777277","https://openalex.org/W2804311270","https://openalex.org/W2806619968","https://openalex.org/W2921325297","https://openalex.org/W2963341956","https://openalex.org/W2964121744","https://openalex.org/W2964179635"],"related_works":["https://openalex.org/W842810586","https://openalex.org/W4319940250","https://openalex.org/W2352298027","https://openalex.org/W2092919065","https://openalex.org/W3138801416","https://openalex.org/W4236762297","https://openalex.org/W2444550338","https://openalex.org/W2801393723","https://openalex.org/W2169232658","https://openalex.org/W2369351710"],"abstract_inverted_index":{"In":[0],"this":[1],"work,":[2,67],"we":[3,68],"have":[4],"created":[5],"a":[6,21,92],"corpus":[7,36,72,109],"that":[8,24,78,95],"goes":[9],"beyond":[10],"the":[11,26,35,56,71,98,102,111,118],"existing":[12],"clinical":[13,63,105],"trial":[14,64],"corpora,":[15],"since":[16],"it":[17,39],"is":[18,37],"annotated":[19],"in":[20,31],"schematic":[22],"way":[23],"represents":[25],"classes":[27],"and":[28,43,53,82,110,117],"properties":[29],"defined":[30],"an":[32],"ontology.":[33],"Although":[34],"small,":[38],"has":[40],"fine-grained":[41],"annotations":[42],"could":[44],"be":[45],"used":[46],"to":[47,55,90,113],"fine-tune":[48],"pre-trained":[49],"machine":[50],"learning":[51],"models":[52],"transformers":[54],"specific":[57],"task":[58],"of":[59,104],"extracting":[60],"information":[61,75],"about":[62],"abstracts.For":[65],"future":[66],"will":[69],"use":[70],"for":[73,101],"training":[74],"extraction":[76],"systems":[77],"extract":[79],"single":[80],"entities,":[81],"predict":[83],"template":[84],"slot-fillers":[85],"(i.e.,":[86],"class":[87],"data/object":[88],"properties)":[89],"populate":[91],"knowledge":[93],"base":[94],"relies":[96],"on":[97],"C-TrO":[99],"ontology":[100],"description":[103],"trials.":[106],"The":[107],"resulting":[108],"code":[112],"measure":[114],"inter-annotation":[115],"agreement":[116],"baseline":[119],"method":[120],"are":[121],"publicly":[122],"available":[123],"at":[124],"https://zenodo.org/record/6365890.":[125]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
