{"id":"https://openalex.org/W2033263730","doi":"https://doi.org/10.1186/1471-2105-8-287","title":"OReFiL: an online resource finder for life sciences","display_name":"OReFiL: an online resource finder for life sciences","publication_year":2007,"publication_date":"2007-08-06","ids":{"openalex":"https://openalex.org/W2033263730","doi":"https://doi.org/10.1186/1471-2105-8-287","mag":"2033263730","pmid":"https://pubmed.ncbi.nlm.nih.gov/17683589"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-8-287","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-287","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-8-287.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-8-287.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063942302","display_name":"Yasunori Yamamoto","orcid":"https://orcid.org/0000-0002-6943-6887"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Yasunori Yamamoto","raw_affiliation_strings":["Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Chiba, Japan. yayamamo@cb.k.u-tokyo.ac.jp","Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Chiba, Japan. yayamamo@cb.k.u-tokyo.ac.jp","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5104355283","display_name":"Toshihisa Takagi","orcid":null},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Toshihisa Takagi","raw_affiliation_strings":["Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Chiba, Japan","Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Chiba, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa, Japan","institution_ids":["https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5063942302"],"corresponding_institution_ids":["https://openalex.org/I74801974"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.3772,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.59714048,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"8","issue":"1","first_page":"287","last_page":"287"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9147999882698059,"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":0.9147999882698059,"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/T10286","display_name":"Information Retrieval and Search Behavior","score":0.0071000000461936,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.005400000140070915,"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":0.8011763095855713},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.6941403150558472},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.6655650734901428},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.6387437582015991},{"id":"https://openalex.org/keywords/credibility","display_name":"Credibility","score":0.5932993292808533},{"id":"https://openalex.org/keywords/web-crawler","display_name":"Web crawler","score":0.5863514542579651},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.5637896060943604},{"id":"https://openalex.org/keywords/subject","display_name":"Subject (documents)","score":0.5371826887130737},{"id":"https://openalex.org/keywords/web-resource","display_name":"Web resource","score":0.5213136076927185},{"id":"https://openalex.org/keywords/online-search","display_name":"Online search","score":0.4383712112903595},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3443347215652466}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8011763095855713},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.6941403150558472},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.6655650734901428},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.6387437582015991},{"id":"https://openalex.org/C2780224610","wikidata":"https://www.wikidata.org/wiki/Q1530061","display_name":"Credibility","level":2,"score":0.5932993292808533},{"id":"https://openalex.org/C13743948","wikidata":"https://www.wikidata.org/wiki/Q45842","display_name":"Web crawler","level":2,"score":0.5863514542579651},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.5637896060943604},{"id":"https://openalex.org/C2777855551","wikidata":"https://www.wikidata.org/wiki/Q12310021","display_name":"Subject (documents)","level":2,"score":0.5371826887130737},{"id":"https://openalex.org/C65603577","wikidata":"https://www.wikidata.org/wiki/Q3427877","display_name":"Web resource","level":2,"score":0.5213136076927185},{"id":"https://openalex.org/C171089853","wikidata":"https://www.wikidata.org/wiki/Q7094123","display_name":"Online search","level":2,"score":0.4383712112903595},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3443347215652466},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D009862","descriptor_name":"Online Systems","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D009862","descriptor_name":"Online Systems","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D009862","descriptor_name":"Online Systems","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":true},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D046650","descriptor_name":"Medical Subject Headings","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-8-287","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-287","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-8-287.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:17683589","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17683589","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:9145f18e1020425a83c7d976fef56e04","is_oa":false,"landing_page_url":"https://doaj.org/article/9145f18e1020425a83c7d976fef56e04","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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 8, Iss 1, p 287 (2007)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:1976328","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1976328","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-8-287","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-287","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-8-287.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Responsible consumption and production","score":0.4699999988079071,"id":"https://metadata.un.org/sdg/12"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320912","display_name":"Ministry of Education, Culture, Sports, Science and Technology","ror":"https://ror.org/048rj2z13"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2033263730.pdf","grobid_xml":"https://content.openalex.org/works/W2033263730.grobid-xml"},"referenced_works_count":8,"referenced_works":["https://openalex.org/W1764002470","https://openalex.org/W1971935411","https://openalex.org/W2087663869","https://openalex.org/W2112414993","https://openalex.org/W2114857923","https://openalex.org/W2147081522","https://openalex.org/W2257876130","https://openalex.org/W2916858871"],"related_works":["https://openalex.org/W4226079483","https://openalex.org/W2183593492","https://openalex.org/W3109858739","https://openalex.org/W4285048456","https://openalex.org/W2066309116","https://openalex.org/W2794831687","https://openalex.org/W2378232036","https://openalex.org/W4313495655","https://openalex.org/W2073780884","https://openalex.org/W4249316625"],"abstract_inverted_index":{"BACKGROUND:":[0],"Many":[1],"online":[2,84,138,150,210,229,286],"resources":[3,54,139,230],"for":[4,209],"the":[5,45,49,102,115,137,177,190,200,223,235,255,263,266,282],"life":[6,211],"sciences":[7],"have":[8,27],"been":[9,28],"developed":[10,82,95,204],"and":[11,20,47,60,63,78,111,127,144,170,188,194,278],"introduced":[12,29,231],"in":[13,30,48,108,232],"peer-reviewed":[14,233],"papers":[15,113,261],"recently,":[16],"ranging":[17],"from":[18],"databases":[19],"web":[21,103,288],"applications":[22],"to":[23,90,98,140,176,198,225,237,254,260],"data-analysis":[24],"software.":[25],"Some":[26],"special":[31],"journal":[32],"issues":[33],"or":[34,244,259,275],"websites":[35],"with":[36,164],"a":[37,96,206],"search":[38,86,207,238,267],"function,":[39],"but":[40,73],"others":[41],"remain":[42],"scattered":[43],"throughout":[44],"Internet":[46],"published":[50],"literature.":[51],"The":[52,120,218],"searchable":[53],"on":[55,114,130],"these":[56,92],"sites":[57],"are":[58,64],"collected":[59],"maintained":[61],"manually":[62],"therefore":[65],"of":[66,101,249,269,281,284],"higher":[67],"quality":[68],"than":[69],"automatically":[70,185],"updated":[71],"sites,":[72],"also":[74],"require":[75],"more":[76],"time":[77,193],"effort.":[79],"DESCRIPTION:":[80],"We":[81,94,134,203],"an":[83,285],"resource":[85,151,287],"system":[87,208],"called":[88],"OReFiL":[89,184],"address":[91],"issues.":[93],"crawler":[97],"gather":[99],"all":[100],"pages":[104],"whose":[105],"URLs":[106,121,187],"appear":[107],"MEDLINE":[109],"abstracts":[110],"full-text":[112],"BioMed":[116,270],"Central":[117],"open-access":[118],"journals.":[119],"were":[122],"extracted":[123],"using":[124,239],"regular":[125],"expressions":[126],"rules":[128],"based":[129],"our":[131],"heuristic":[132],"knowledge.":[133],"then":[135],"indexed":[136],"facilitate":[141],"their":[142],"retrieval":[143],"comparison":[145],"by":[146],"researchers.":[147],"Because":[148],"every":[149],"has":[152],"at":[153],"least":[154],"one":[155],"PubMed":[156,179,257],"ID,":[157],"we":[158],"can":[159],"easily":[160],"acquire":[161],"its":[162,172],"summary":[163],"Medical":[165],"Subject":[166],"Headings":[167],"(MeSH)":[168],"terms":[169],"confirm":[171],"credibility":[173],"through":[174,265],"reference":[175],"corresponding":[178,256],"entry.":[180],"In":[181],"addition,":[182],"because":[183],"extracts":[186],"updates":[189],"index,":[191],"minimal":[192],"effort":[195],"is":[196,215],"needed":[197],"maintain":[199],"system.":[201],"CONCLUSION:":[202],"OReFiL,":[205],"science":[212],"resources,":[213],"which":[214],"freely":[216],"available.":[217],"system's":[219],"distinctive":[220],"features":[221],"include":[222],"ability":[224,236],"return":[226],"up-to-date":[227],"query-relevant":[228],"papers;":[234],"free":[240],"words,":[241],"MeSH":[242],"terms,":[243],"author":[245],"names;":[246],"easy":[247],"verification":[248],"each":[250],"hit":[251],"following":[252],"links":[253],"entry":[258],"citing":[262],"URL":[264],"systems":[268],"Central,":[271],"Scirus,":[272],"HighWire":[273],"Press,":[274],"Google":[276],"Scholar;":[277],"quick":[279],"confirmation":[280],"existence":[283],"page.":[289]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":2}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
