{"id":"https://openalex.org/W3138178173","doi":"https://doi.org/10.1186/s13326-021-00239-z","title":"SIENA: Semi-automatic semantic enhancement of datasets using concept recognition","display_name":"SIENA: Semi-automatic semantic enhancement of datasets using concept recognition","publication_year":2021,"publication_date":"2021-03-24","ids":{"openalex":"https://openalex.org/W3138178173","doi":"https://doi.org/10.1186/s13326-021-00239-z","mag":"3138178173","pmid":"https://pubmed.ncbi.nlm.nih.gov/33761996"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-021-00239-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00239-z","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00239-z","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/counter/pdf/10.1186/s13326-021-00239-z","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006982828","display_name":"Andreea Grigoriu","orcid":null},"institutions":[{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Andreea Grigoriu","raw_affiliation_strings":["Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands. a.grigoriu@maastrichtuniversity.nl","Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands"],"affiliations":[{"raw_affiliation_string":"Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands. a.grigoriu@maastrichtuniversity.nl","institution_ids":[]},{"raw_affiliation_string":"Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands","institution_ids":["https://openalex.org/I34352273"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053300261","display_name":"Amrapali Zaveri","orcid":"https://orcid.org/0000-0003-3239-4588"},"institutions":[{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Amrapali Zaveri","raw_affiliation_strings":["Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands"],"affiliations":[{"raw_affiliation_string":"Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands","institution_ids":["https://openalex.org/I34352273"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112071698","display_name":"Gerhard Wei\u00df","orcid":"https://orcid.org/0000-0002-6190-2513"},"institutions":[{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Gerhard Weiss","raw_affiliation_strings":["Department of Data Science and Knowledge Engineering, Maastricht University, Paul-Henri Spaaklaan 1, Maastricht, 6229 EN, Netherlands"],"affiliations":[{"raw_affiliation_string":"Department of Data Science and Knowledge Engineering, Maastricht University, Paul-Henri Spaaklaan 1, Maastricht, 6229 EN, Netherlands","institution_ids":["https://openalex.org/I34352273"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044836472","display_name":"Michel Dumontier","orcid":"https://orcid.org/0000-0003-4727-9435"},"institutions":[{"id":"https://openalex.org/I34352273","display_name":"Maastricht University","ror":"https://ror.org/02jz4aj89","country_code":"NL","type":"education","lineage":["https://openalex.org/I34352273"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Michel Dumontier","raw_affiliation_strings":["Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands"],"affiliations":[{"raw_affiliation_string":"Institute of Data Science, Maastricht University, Universiteitsingel 60, Maastricht, 6229 ER, Netherlands","institution_ids":["https://openalex.org/I34352273"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5006982828"],"corresponding_institution_ids":["https://openalex.org/I34352273"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459},"fwci":0.1623,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.47738517,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"5","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998999834060669,"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":0.9998999834060669,"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":0.986299991607666,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9763000011444092,"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/computer-science","display_name":"Computer science","score":0.885273277759552},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.6575261354446411},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6220919489860535},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6054773926734924},{"id":"https://openalex.org/keywords/semantic-annotation","display_name":"Semantic annotation","score":0.5348016023635864},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5047348737716675},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4694383144378662},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.4393846094608307},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.36182817816734314},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3547842800617218},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.354472815990448}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.885273277759552},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6575261354446411},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6220919489860535},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6054773926734924},{"id":"https://openalex.org/C2985727698","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Semantic annotation","level":3,"score":0.5348016023635864},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5047348737716675},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4694383144378662},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.4393846094608307},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.36182817816734314},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3547842800617218},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.354472815990448},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"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/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s13326-021-00239-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00239-z","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00239-z","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:33761996","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33761996","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:cris.maastrichtuniversity.nl:openaire/71ca8aac-3a66-4d72-a0b5-3597ea80f60b","is_oa":true,"landing_page_url":"https://cris.maastrichtuniversity.nl/en/publications/71ca8aac-3a66-4d72-a0b5-3597ea80f60b","pdf_url":null,"source":{"id":"https://openalex.org/S4306402616","display_name":"Research Publications (Maastricht University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I34352273","host_organization_name":"Maastricht University","host_organization_lineage":["https://openalex.org/I34352273"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Grigoriu, A, Zaveri, A, Weiss, G & Dumontier, M 2021, 'SIENA : Semi-automatic semantic enhancement of datasets using concept recognition', Journal of biomedical semantics, vol. 12, no. 1, 5. https://doi.org/10.1186/s13326-021-00239-z","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:06f52cbfb6c2430982fd29411b8b13e2","is_oa":true,"landing_page_url":"https://doaj.org/article/06f52cbfb6c2430982fd29411b8b13e2","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 Biomedical Semantics, Vol 12, Iss 1, Pp 1-12 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7992819","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7992819","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/s13326-021-00239-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00239-z","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00239-z","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/G5227202606","display_name":null,"funder_award_id":"#1OT3TR002027","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"}],"funders":[{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3138178173.pdf","grobid_xml":"https://content.openalex.org/works/W3138178173.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W196214544","https://openalex.org/W1556287016","https://openalex.org/W1568062731","https://openalex.org/W1825157170","https://openalex.org/W1870959433","https://openalex.org/W2031627786","https://openalex.org/W2032875107","https://openalex.org/W2056590938","https://openalex.org/W2106797966","https://openalex.org/W2131660156","https://openalex.org/W2141599568","https://openalex.org/W2151698208","https://openalex.org/W2158191506","https://openalex.org/W2275216626","https://openalex.org/W2295714917","https://openalex.org/W2555181725","https://openalex.org/W2784292677","https://openalex.org/W2787625700","https://openalex.org/W2908059626","https://openalex.org/W3099272318","https://openalex.org/W3100973606","https://openalex.org/W4247007654","https://openalex.org/W4297785223","https://openalex.org/W6607974698","https://openalex.org/W6748848544"],"related_works":["https://openalex.org/W2369337446","https://openalex.org/W2126412646","https://openalex.org/W4385569300","https://openalex.org/W2574165153","https://openalex.org/W2251095918","https://openalex.org/W2206855020","https://openalex.org/W2105339902","https://openalex.org/W2900565345","https://openalex.org/W2972508764","https://openalex.org/W1978635732"],"abstract_inverted_index":{"Using":[0],"concept":[1],"recognition":[2],"combined":[3],"with":[4,10],"machine":[5],"learning":[6],"techniques":[7],"and":[8],"annotation":[9],"a":[11],"biomedical":[12],"ontology,":[13],"the":[14],"proposed":[15],"framework":[16],"can":[17,30],"provide":[18],"datasets":[19],"to":[20],"reach":[21],"their":[22],"full":[23],"potential":[24],"of":[25],"providing":[26],"meaningful":[27],"information,":[28],"which":[29],"answer":[31],"scientific":[32],"research":[33],"questions.":[34]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
