{"id":"https://openalex.org/W1968102155","doi":"https://doi.org/10.1109/bibe.2008.4696707","title":"A framework for the development of Biomedical Text Mining software tools","display_name":"A framework for the development of Biomedical Text Mining software tools","publication_year":2008,"publication_date":"2008-10-01","ids":{"openalex":"https://openalex.org/W1968102155","doi":"https://doi.org/10.1109/bibe.2008.4696707","mag":"1968102155"},"language":"en","primary_location":{"id":"doi:10.1109/bibe.2008.4696707","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2008.4696707","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 8th IEEE International Conference on BioInformatics and BioEngineering","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://repositorium.uminho.pt/bitstreams/00d37dc0-8f27-415f-b8d5-c2b32c3677db/download","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5033016354","display_name":"An\u00e1lia Louren\u00e7o","orcid":"https://orcid.org/0000-0001-8401-5362"},"institutions":[{"id":"https://openalex.org/I4210167387","display_name":"Institute for Biotechnology and Bioengineering","ror":"https://ror.org/05ws8g470","country_code":"PT","type":"facility","lineage":["https://openalex.org/I4210167387"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Analia Lourenco","raw_affiliation_strings":["1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052144488","display_name":"Rafael Carreira","orcid":"https://orcid.org/0000-0003-4102-4204"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Rafael Carreira","raw_affiliation_strings":["Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054642116","display_name":"S\u00f3nia Carneiro","orcid":"https://orcid.org/0000-0001-8037-937X"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]},{"id":"https://openalex.org/I4210167387","display_name":"Institute for Biotechnology and Bioengineering","ror":"https://ror.org/05ws8g470","country_code":"PT","type":"facility","lineage":["https://openalex.org/I4210167387"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Sonia Carneiro","raw_affiliation_strings":["1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077583417","display_name":"Paulo Maia","orcid":"https://orcid.org/0000-0002-0848-8683"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Paulo Maia","raw_affiliation_strings":["Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044007257","display_name":"Daniel Glez\u2010Pe\u00f1a","orcid":"https://orcid.org/0000-0002-6129-7245"},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]},{"id":"https://openalex.org/I4210165394","display_name":"Complejo Hospitalario de Ourense","ror":"https://ror.org/04f1y4a64","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210158352","https://openalex.org/I4210165394"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Daniel Glez-Pena","raw_affiliation_strings":["Department Inform\u00e1tica, University of Vigo, Ourense, Spain","Dept. Inform\u00e1tica, Campus Universitario As Lagoas s/n, Ourense, Spain"],"affiliations":[{"raw_affiliation_string":"Department Inform\u00e1tica, University of Vigo, Ourense, Spain","institution_ids":["https://openalex.org/I6289922"]},{"raw_affiliation_string":"Dept. Inform\u00e1tica, Campus Universitario As Lagoas s/n, Ourense, Spain","institution_ids":["https://openalex.org/I4210165394"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048392452","display_name":"Florentino Fdez\u2010Riverola","orcid":"https://orcid.org/0000-0002-3943-8013"},"institutions":[{"id":"https://openalex.org/I4210167387","display_name":"Institute for Biotechnology and Bioengineering","ror":"https://ror.org/05ws8g470","country_code":"PT","type":"facility","lineage":["https://openalex.org/I4210167387"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Florentino Fdez-Riverola","raw_affiliation_strings":["1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064824604","display_name":"Eug\u00e9nio C. Ferreira","orcid":"https://orcid.org/0000-0002-5400-3333"},"institutions":[{"id":"https://openalex.org/I4210165394","display_name":"Complejo Hospitalario de Ourense","ror":"https://ror.org/04f1y4a64","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210158352","https://openalex.org/I4210165394"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]},{"id":"https://openalex.org/I4210167387","display_name":"Institute for Biotechnology and Bioengineering","ror":"https://ror.org/05ws8g470","country_code":"PT","type":"facility","lineage":["https://openalex.org/I4210167387"]}],"countries":["ES","PT"],"is_corresponding":false,"raw_author_name":"Eugenio C. Ferreira","raw_affiliation_strings":["BB Institute for Biotechnology and Bioengineering, Center of Biological Engineering, University of Minho, Braga, Portugal","Dept. Inform\u00e1tica, Campus Universitario As Lagoas s/n, Ourense, Spain"],"affiliations":[{"raw_affiliation_string":"BB Institute for Biotechnology and Bioengineering, Center of Biological Engineering, University of Minho, Braga, Portugal","institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"]},{"raw_affiliation_string":"Dept. Inform\u00e1tica, Campus Universitario As Lagoas s/n, Ourense, Spain","institution_ids":["https://openalex.org/I4210165394"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079343705","display_name":"Isabel Rocha","orcid":"https://orcid.org/0000-0001-9494-3410"},"institutions":[{"id":"https://openalex.org/I4210167387","display_name":"Institute for Biotechnology and Bioengineering","ror":"https://ror.org/05ws8g470","country_code":"PT","type":"facility","lineage":["https://openalex.org/I4210167387"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Isabel Rocha","raw_affiliation_strings":["1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"1BB-Institute for Biotechnology and Bioengineering, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040524717","display_name":"Miguel Rocha","orcid":"https://orcid.org/0000-0001-8439-8172"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Miguel Rocha","raw_affiliation_strings":["Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL"],"affiliations":[{"raw_affiliation_string":"Departament of Informatics/CCTC, University of Minho, Braga, PORTUGAL","institution_ids":["https://openalex.org/I99682543"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5033016354"],"corresponding_institution_ids":["https://openalex.org/I4210167387","https://openalex.org/I99682543"],"apc_list":null,"apc_paid":null,"fwci":0.1383,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.53337961,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.98089998960495,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9793999791145325,"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":0.7688937187194824},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.7551224231719971},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.6182153820991516},{"id":"https://openalex.org/keywords/implementation","display_name":"Implementation","score":0.5896501541137695},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5704231858253479},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.559764564037323},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.5233315825462341},{"id":"https://openalex.org/keywords/software-development","display_name":"Software development","score":0.5096848011016846},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.507452666759491},{"id":"https://openalex.org/keywords/software-framework","display_name":"Software framework","score":0.47711899876594543},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4307842254638672},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.34476804733276367},{"id":"https://openalex.org/keywords/software-construction","display_name":"Software construction","score":0.2921186089515686},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.13243046402931213}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7688937187194824},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.7551224231719971},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.6182153820991516},{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.5896501541137695},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5704231858253479},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.559764564037323},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.5233315825462341},{"id":"https://openalex.org/C529173508","wikidata":"https://www.wikidata.org/wiki/Q638608","display_name":"Software development","level":3,"score":0.5096848011016846},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.507452666759491},{"id":"https://openalex.org/C76518257","wikidata":"https://www.wikidata.org/wiki/Q271680","display_name":"Software framework","level":5,"score":0.47711899876594543},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4307842254638672},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.34476804733276367},{"id":"https://openalex.org/C186846655","wikidata":"https://www.wikidata.org/wiki/Q3398377","display_name":"Software construction","level":4,"score":0.2921186089515686},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.13243046402931213},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/bibe.2008.4696707","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2008.4696707","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 8th IEEE International Conference on BioInformatics and BioEngineering","raw_type":"proceedings-article"},{"id":"pmh:oai:repositorium.uminho.pt:1822/16846","is_oa":true,"landing_page_url":"https://hdl.handle.net/1822/16846","pdf_url":"https://repositorium.uminho.pt/bitstreams/00d37dc0-8f27-415f-b8d5-c2b32c3677db/download","source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"conference paper"}],"best_oa_location":{"id":"pmh:oai:repositorium.uminho.pt:1822/16846","is_oa":true,"landing_page_url":"https://hdl.handle.net/1822/16846","pdf_url":"https://repositorium.uminho.pt/bitstreams/00d37dc0-8f27-415f-b8d5-c2b32c3677db/download","source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"conference paper"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.47999998927116394,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320325399","display_name":"Universidade do Minho","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1968102155.pdf","grobid_xml":"https://content.openalex.org/works/W1968102155.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W108101778","https://openalex.org/W1495804139","https://openalex.org/W1604912804","https://openalex.org/W1607983314","https://openalex.org/W1991983805","https://openalex.org/W2037023841","https://openalex.org/W2056798512","https://openalex.org/W2099369363","https://openalex.org/W2103397879","https://openalex.org/W2122545791","https://openalex.org/W2122904379","https://openalex.org/W2125413176","https://openalex.org/W2133431243","https://openalex.org/W2135937947","https://openalex.org/W2140334041","https://openalex.org/W2148395543","https://openalex.org/W2165371346","https://openalex.org/W2168905447","https://openalex.org/W2169918010","https://openalex.org/W6684218895"],"related_works":["https://openalex.org/W4377091993","https://openalex.org/W2394790912","https://openalex.org/W2125524019","https://openalex.org/W2368462085","https://openalex.org/W2359960837","https://openalex.org/W2120393889","https://openalex.org/W2537972668","https://openalex.org/W3158259582","https://openalex.org/W2384892149","https://openalex.org/W2026093893"],"abstract_inverted_index":{"Over":[0],"the":[1,19,26,55],"last":[2],"few":[3],"years,":[4],"a":[5,38,44,51,67,95],"growing":[6],"number":[7],"of":[8,28,57,69,91],"techniques":[9],"has":[10,34],"been":[11],"successfully":[12],"proposed":[13],"to":[14,32,46,53,81,100],"tackle":[15],"diverse":[16,79],"challenges":[17],"in":[18,37,62,78],"biomedical":[20],"text":[21],"mining":[22],"(BioTM)":[23],"arena.":[24],"However,":[25],"set":[27,68],"available":[29,70],"software":[30,108],"tools":[31],"researchers":[33],"not":[35],"grown":[36],"similar":[39],"way.":[40],"This":[41],"work":[42],"makes":[43],"contribution":[45],"close":[47],"this":[48,63],"gap,":[49],"proposing":[50],"framework":[52,96],"ease":[54],"development":[56],"user-friendly":[58],"and":[59],"interoperable":[60],"applications":[61,83],"field,":[64],"based":[65],"on":[66],"modular":[71],"components.":[72],"These":[73],"modules":[74],"can":[75],"be":[76],"connected":[77],"ways":[80],"create":[82],"that":[84,97],"fit":[85],"distinct":[86],"user":[87],"roles.":[88],"Also,":[89],"developers":[90],"new":[92],"algorithms":[93],"have":[94],"allows":[98],"them":[99],"easily":[101],"integrate":[102],"their":[103],"implementations":[104],"with":[105],"state-of-the-art":[106],"BioTM":[107],"for":[109],"related":[110],"tasks.":[111]},"counts_by_year":[],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2025-10-10T00:00:00"}
