{"id":"https://openalex.org/W2045214267","doi":"https://doi.org/10.1155/2012/573846","title":"Literature Retrieval and Mining in Bioinformatics: State of the Art and Challenges","display_name":"Literature Retrieval and Mining in Bioinformatics: State of the Art and Challenges","publication_year":2012,"publication_date":"2012-06-21","ids":{"openalex":"https://openalex.org/W2045214267","doi":"https://doi.org/10.1155/2012/573846","mag":"2045214267","pmid":"https://pubmed.ncbi.nlm.nih.gov/22778730"},"language":"en","primary_location":{"id":"doi:10.1155/2012/573846","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2012/573846","pdf_url":"https://downloads.hindawi.com/archive/2012/573846.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://downloads.hindawi.com/archive/2012/573846.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103106094","display_name":"Andrea Manconi","orcid":"https://orcid.org/0000-0002-1287-2768"},"institutions":[{"id":"https://openalex.org/I4210154278","display_name":"Institute of Biomedical Technologies","ror":"https://ror.org/04ehykb85","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Andrea Manconi","raw_affiliation_strings":["Institute for Biomedical Technologies, National Research Council, Via F.lli Cervi, 93, 20090 Segrate, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Biomedical Technologies, National Research Council, Via F.lli Cervi, 93, 20090 Segrate, Italy","institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072647170","display_name":"Eloisa Vargiu","orcid":"https://orcid.org/0000-0002-3840-628X"},"institutions":[{"id":"https://openalex.org/I172446870","display_name":"University of Cagliari","ror":"https://ror.org/003109y17","country_code":"IT","type":"education","lineage":["https://openalex.org/I172446870"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Eloisa Vargiu","raw_affiliation_strings":["Barcelona Digital Technological Center, C/Roc Boronat 117, 08018 Barcelona, Spain","Department of Electrical and Electronic Engineering, University of Cagliari, Piazza d'Armi, 09123 Cagliari, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Barcelona Digital Technological Center, C/Roc Boronat 117, 08018 Barcelona, Spain","institution_ids":[]},{"raw_affiliation_string":"Department of Electrical and Electronic Engineering, University of Cagliari, Piazza d'Armi, 09123 Cagliari, Italy","institution_ids":["https://openalex.org/I172446870"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010844048","display_name":"Giuliano Armano","orcid":"https://orcid.org/0000-0002-8597-1433"},"institutions":[{"id":"https://openalex.org/I172446870","display_name":"University of Cagliari","ror":"https://ror.org/003109y17","country_code":"IT","type":"education","lineage":["https://openalex.org/I172446870"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giuliano Armano","raw_affiliation_strings":["Department of Electrical and Electronic Engineering, University of Cagliari, Piazza d'Armi, 09123 Cagliari, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Electronic Engineering, University of Cagliari, Piazza d'Armi, 09123 Cagliari, Italy","institution_ids":["https://openalex.org/I172446870"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088629765","display_name":"Luciano Milanesi","orcid":"https://orcid.org/0000-0002-1201-3939"},"institutions":[{"id":"https://openalex.org/I4210154278","display_name":"Institute of Biomedical Technologies","ror":"https://ror.org/04ehykb85","country_code":"IT","type":"facility","lineage":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I4210155236","display_name":"National Research Council","ror":"https://ror.org/04zaypm56","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210155236"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Luciano Milanesi","raw_affiliation_strings":["Institute for Biomedical Technologies, National Research Council, Via F.lli Cervi, 93, 20090 Segrate, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Biomedical Technologies, National Research Council, Via F.lli Cervi, 93, 20090 Segrate, Italy","institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5103106094"],"corresponding_institution_ids":["https://openalex.org/I4210154278","https://openalex.org/I4210155236"],"apc_list":null,"apc_paid":null,"fwci":1.8808,"has_fulltext":true,"cited_by_count":20,"citation_normalized_percentile":{"value":0.85194811,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2012","issue":null,"first_page":"1","last_page":"10"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.998199999332428,"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":0.998199999332428,"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":0.9828000068664551,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9797999858856201,"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":0.7616897821426392},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.6750181913375854},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5920512676239014},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4841902554035187},{"id":"https://openalex.org/keywords/state","display_name":"State (computer science)","score":0.468581885099411},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4325062036514282},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3290450870990753}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7616897821426392},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.6750181913375854},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5920512676239014},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4841902554035187},{"id":"https://openalex.org/C48103436","wikidata":"https://www.wikidata.org/wiki/Q599031","display_name":"State (computer science)","level":2,"score":0.468581885099411},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4325062036514282},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3290450870990753},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1155/2012/573846","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2012/573846","pdf_url":"https://downloads.hindawi.com/archive/2012/573846.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22778730","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22778730","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":"Advances in bioinformatics","raw_type":null},{"id":"pmh:oai:iris.unica.it:11584/107626","is_oa":true,"landing_page_url":"http://hdl.handle.net/11584/107626","pdf_url":"http://www.hindawi.com/journals/abi/2012/573846/","source":{"id":"https://openalex.org/S4377196293","display_name":"UNICA IRIS Institutional Research Information System (University of Cagliari)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172446870","host_organization_name":"University of Cagliari","host_organization_lineage":["https://openalex.org/I172446870"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:5e3e946c84e649a39f547f25460dedfa","is_oa":false,"landing_page_url":"https://doaj.org/article/5e3e946c84e649a39f547f25460dedfa","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Advances in Bioinformatics, Vol 2012 (2012)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2397593","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3388278","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:10.1155/2012/573846","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2012/573846","pdf_url":"https://downloads.hindawi.com/archive/2012/573846.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7400000095367432,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320322832","display_name":"University of Tokyo","ror":"https://ror.org/057zh3y96"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2045214267.pdf","grobid_xml":"https://content.openalex.org/works/W2045214267.grobid-xml"},"referenced_works_count":74,"referenced_works":["https://openalex.org/W107306860","https://openalex.org/W140219282","https://openalex.org/W246808545","https://openalex.org/W1501617060","https://openalex.org/W1502749598","https://openalex.org/W1532325895","https://openalex.org/W1566012138","https://openalex.org/W1580481679","https://openalex.org/W1596532771","https://openalex.org/W1620588405","https://openalex.org/W1660390307","https://openalex.org/W1800049145","https://openalex.org/W1835272931","https://openalex.org/W1954715867","https://openalex.org/W1971935411","https://openalex.org/W1974339500","https://openalex.org/W1983453172","https://openalex.org/W1987602841","https://openalex.org/W1996002274","https://openalex.org/W2009433284","https://openalex.org/W2011726136","https://openalex.org/W2023172750","https://openalex.org/W2024030746","https://openalex.org/W2031950862","https://openalex.org/W2035147392","https://openalex.org/W2039612385","https://openalex.org/W2040610660","https://openalex.org/W2044514479","https://openalex.org/W2046325278","https://openalex.org/W2047632644","https://openalex.org/W2062680013","https://openalex.org/W2064171774","https://openalex.org/W2065807795","https://openalex.org/W2073308541","https://openalex.org/W2081580037","https://openalex.org/W2084625779","https://openalex.org/W2092246763","https://openalex.org/W2094005170","https://openalex.org/W2097106271","https://openalex.org/W2097898123","https://openalex.org/W2099781321","https://openalex.org/W2101727078","https://openalex.org/W2103397879","https://openalex.org/W2110280725","https://openalex.org/W2112236650","https://openalex.org/W2112723752","https://openalex.org/W2116655493","https://openalex.org/W2118002992","https://openalex.org/W2118020653","https://openalex.org/W2119458544","https://openalex.org/W2120535580","https://openalex.org/W2122904379","https://openalex.org/W2126276057","https://openalex.org/W2132784310","https://openalex.org/W2137005794","https://openalex.org/W2139259976","https://openalex.org/W2143349571","https://openalex.org/W2145036943","https://openalex.org/W2145966577","https://openalex.org/W2147152072","https://openalex.org/W2147558260","https://openalex.org/W2147585745","https://openalex.org/W2147709600","https://openalex.org/W2147810216","https://openalex.org/W2147964825","https://openalex.org/W2159335058","https://openalex.org/W2163915185","https://openalex.org/W2166347079","https://openalex.org/W2170406741","https://openalex.org/W2334537889","https://openalex.org/W2338565478","https://openalex.org/W2522519459","https://openalex.org/W2594139235","https://openalex.org/W2988119488"],"related_works":["https://openalex.org/W2982120024","https://openalex.org/W4213212078","https://openalex.org/W1536049545","https://openalex.org/W574531438","https://openalex.org/W2112788825","https://openalex.org/W2187227032","https://openalex.org/W3123265518","https://openalex.org/W1963735073","https://openalex.org/W1559377018","https://openalex.org/W2575246084"],"abstract_inverted_index":{"The":[0],"world":[1],"has":[2,61],"widely":[3],"changed":[4],"in":[5,20,28,91,101],"terms":[6],"of":[7,14,16,46,59,113],"communicating,":[8],"acquiring,":[9],"and":[10,89],"storing":[11],"information.":[12],"Hundreds":[13],"millions":[15],"people":[17],"are":[18,99],"involved":[19],"information":[21,47,60,76,96],"retrieval":[22,88,97],"tasks":[23],"on":[24,82,86],"a":[25,32,64,80],"daily":[26],"basis,":[27],"particular":[29],"while":[30],"using":[31],"Web":[33],"search":[34],"engine":[35],"or":[36],"searching":[37],"their":[38],"e-mail,":[39],"making":[40],"such":[41],"field":[42],"the":[43,72,83,111],"dominant":[44],"form":[45],"access,":[48],"overtaking":[49],"traditional":[50],"database-style":[51],"searching.":[52],"How":[53],"to":[54],"handle":[55],"this":[56,68],"huge":[57],"amount":[58],"now":[62],"become":[63],"challenging":[65],"issue.":[66],"In":[67],"paper,":[69],"after":[70],"recalling":[71],"main":[73,84],"topics":[74],"concerning":[75],"retrieval,":[77],"we":[78,104],"present":[79],"survey":[81],"works":[85],"literature":[87],"mining":[90],"bioinformatics.":[92],"While":[93],"claiming":[94],"that":[95],"approaches":[98,115],"useful":[100],"bioinformatics":[102],"tasks,":[103],"discuss":[105],"some":[106],"challenges":[107],"aimed":[108],"at":[109],"showing":[110],"effectiveness":[112],"these":[114],"applied":[116],"therein.":[117]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":6}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}