{"id":"https://openalex.org/W1999302328","doi":"https://doi.org/10.1186/2041-1480-5-11","title":"Benchmarking infrastructure for mutation text mining","display_name":"Benchmarking infrastructure for mutation text mining","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W1999302328","doi":"https://doi.org/10.1186/2041-1480-5-11","mag":"1999302328","pmid":"https://pubmed.ncbi.nlm.nih.gov/24568600"},"language":"en","primary_location":{"id":"doi:10.1186/2041-1480-5-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-11","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-11","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/10.1186/2041-1480-5-11","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5055810929","display_name":"Artjom Klein","orcid":null},"institutions":[{"id":"https://openalex.org/I106938459","display_name":"University of New Brunswick","ror":"https://ror.org/05nkf0n29","country_code":"CA","type":"education","lineage":["https://openalex.org/I106938459"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Artjom Klein","raw_affiliation_strings":["Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada. artjom.unb@gmail.com","Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada"],"affiliations":[{"raw_affiliation_string":"Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada. artjom.unb@gmail.com","institution_ids":[]},{"raw_affiliation_string":"Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada","institution_ids":["https://openalex.org/I106938459"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014954456","display_name":"Alexandre Riazanov","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Alexandre Riazanov","raw_affiliation_strings":["IPSNP Computing Inc, Saint John, New Brunswick, Canada","IPSNP Computing Inc, Saint John, Canada"],"affiliations":[{"raw_affiliation_string":"IPSNP Computing Inc, Saint John, New Brunswick, Canada","institution_ids":[]},{"raw_affiliation_string":"IPSNP Computing Inc, Saint John, Canada","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048753735","display_name":"Matthew Hindle","orcid":"https://orcid.org/0000-0002-6870-4069"},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Matthew M Hindle","raw_affiliation_strings":["Synthetic and Systems Biology, Edinburgh University, Edinburgh, UK"],"affiliations":[{"raw_affiliation_string":"Synthetic and Systems Biology, Edinburgh University, Edinburgh, UK","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080598287","display_name":"Christopher J. O. Baker","orcid":"https://orcid.org/0000-0003-4004-6479"},"institutions":[{"id":"https://openalex.org/I106938459","display_name":"University of New Brunswick","ror":"https://ror.org/05nkf0n29","country_code":"CA","type":"education","lineage":["https://openalex.org/I106938459"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Christopher JO Baker","raw_affiliation_strings":["Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada"],"affiliations":[{"raw_affiliation_string":"Computer Science And Applied Statistics Department, University of New Brunswick, Saint John, Canada","institution_ids":["https://openalex.org/I106938459"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5055810929"],"corresponding_institution_ids":["https://openalex.org/I106938459"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459},"fwci":0.4278,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.6291386,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"5","issue":"1","first_page":"11","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9991999864578247,"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":0.9991999864578247,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9908999800682068,"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":0.987500011920929,"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":0.8624931573867798},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.7893218994140625},{"id":"https://openalex.org/keywords/sparql","display_name":"SPARQL","score":0.6142378449440002},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5088918209075928},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.4799483120441437},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.46817082166671753},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46464845538139343},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4575026333332062},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4303741157054901},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.39106228947639465},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.2840520441532135},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.19316136837005615}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8624931573867798},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.7893218994140625},{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.6142378449440002},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5088918209075928},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.4799483120441437},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.46817082166671753},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46464845538139343},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4575026333332062},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4303741157054901},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.39106228947639465},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.2840520441532135},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.19316136837005615},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"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/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1186/2041-1480-5-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-11","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-11","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:24568600","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24568600","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:europepmc.org:2925288","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3939821","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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/2041-1480-5-11","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-11","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-11","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":[{"score":0.6299999952316284,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G4837330147","display_name":null,"funder_award_id":"Canada","funder_id":"https://openalex.org/F4320319980","funder_display_name":"New Brunswick Innovation Foundation"}],"funders":[{"id":"https://openalex.org/F4320319980","display_name":"New Brunswick Innovation Foundation","ror":"https://ror.org/02rbgnh75"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1999302328.pdf","grobid_xml":"https://content.openalex.org/works/W1999302328.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W4508078","https://openalex.org/W8550301","https://openalex.org/W98609384","https://openalex.org/W1482585805","https://openalex.org/W1564137013","https://openalex.org/W1604281503","https://openalex.org/W1968848598","https://openalex.org/W1969709265","https://openalex.org/W1970989375","https://openalex.org/W1979225493","https://openalex.org/W1985592898","https://openalex.org/W1990747676","https://openalex.org/W1999302328","https://openalex.org/W2002142050","https://openalex.org/W2021064407","https://openalex.org/W2037458235","https://openalex.org/W2040298461","https://openalex.org/W2048501271","https://openalex.org/W2056616115","https://openalex.org/W2059044388","https://openalex.org/W2074133193","https://openalex.org/W2086204383","https://openalex.org/W2092741708","https://openalex.org/W2096297868","https://openalex.org/W2096797897","https://openalex.org/W2102366477","https://openalex.org/W2102777243","https://openalex.org/W2103017472","https://openalex.org/W2104148262","https://openalex.org/W2114702301","https://openalex.org/W2116391100","https://openalex.org/W2120253533","https://openalex.org/W2120681671","https://openalex.org/W2121844933","https://openalex.org/W2131285447","https://openalex.org/W2133018204","https://openalex.org/W2139067830","https://openalex.org/W2140995597","https://openalex.org/W2144427809","https://openalex.org/W2152577585","https://openalex.org/W2154264671","https://openalex.org/W2155518941","https://openalex.org/W2162629891","https://openalex.org/W2163107094","https://openalex.org/W2166240318","https://openalex.org/W2171374484","https://openalex.org/W2251534153","https://openalex.org/W2263893547","https://openalex.org/W2460591548","https://openalex.org/W2805622596","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W4206665951","https://openalex.org/W2615202182","https://openalex.org/W3085073370","https://openalex.org/W2529794967","https://openalex.org/W2978246852","https://openalex.org/W2604011835","https://openalex.org/W2528203718","https://openalex.org/W2295924417","https://openalex.org/W4241483715","https://openalex.org/W2484233589"],"abstract_inverted_index":{"We":[0],"have":[1],"developed":[2],"the":[3,7,21],"principal":[4],"infrastructure":[5,28],"for":[6,23,31,45],"benchmarking":[8],"of":[9,16],"mutation":[10],"text":[11],"mining":[12],"tasks.":[13],"The":[14,27],"use":[15,33],"RDF":[17],"and":[18,38],"OWL":[19],"as":[20],"representation":[22],"corpora":[24],"ensures":[25],"extensibility.":[26],"is":[29,39],"suitable":[30],"out-of-the-box":[32],"in":[34,41],"several":[35],"important":[36],"scenarios":[37],"ready,":[40],"its":[42],"current":[43],"state,":[44],"initial":[46],"community":[47],"adoption.":[48]},"counts_by_year":[{"year":2021,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}