{"id":"https://openalex.org/W31445736","doi":"https://doi.org/10.1007/978-3-642-31830-6_26","title":"Biomine: A Network-Structured Resource of Biological Entities for Link Prediction","display_name":"Biomine: A Network-Structured Resource of Biological Entities for Link Prediction","publication_year":2012,"publication_date":"2012-01-01","ids":{"openalex":"https://openalex.org/W31445736","doi":"https://doi.org/10.1007/978-3-642-31830-6_26","mag":"31445736"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-642-31830-6_26","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-642-31830-6_26","pdf_url":"https://link.springer.com/content/pdf/10.1007/978-3-642-31830-6_26.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007/978-3-642-31830-6_26.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017516043","display_name":"Lauri Eronen","orcid":null},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Lauri Eronen","raw_affiliation_strings":["Department of Computer Science and HIIT, University of Helsinki, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and HIIT, University of Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076181799","display_name":"Petteri Hintsanen","orcid":null},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Petteri Hintsanen","raw_affiliation_strings":["Department of Computer Science and HIIT, University of Helsinki, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and HIIT, University of Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5045869840","display_name":"Hannu Toivonen","orcid":"https://orcid.org/0000-0003-1339-8022"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Hannu Toivonen","raw_affiliation_strings":["Department of Computer Science and HIIT, University of Helsinki, Finland"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and HIIT, University of Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5017516043"],"corresponding_institution_ids":["https://openalex.org/I133731052"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":{"value":5000,"currency":"EUR","value_usd":5392},"fwci":1.6158,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.84230796,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"364","last_page":"378"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9976000189781189,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9905999898910522,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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":0.7786405682563782},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.6550472974777222},{"id":"https://openalex.org/keywords/graph-database","display_name":"Graph database","score":0.6517714262008667},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.6009437441825867},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5603430867195129},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.5156763792037964},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4220374822616577},{"id":"https://openalex.org/keywords/link","display_name":"Link (geometry)","score":0.41463911533355713},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.34646376967430115},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.23251736164093018},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2047443985939026},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12262877821922302}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7786405682563782},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.6550472974777222},{"id":"https://openalex.org/C176225458","wikidata":"https://www.wikidata.org/wiki/Q595971","display_name":"Graph database","level":3,"score":0.6517714262008667},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.6009437441825867},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5603430867195129},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5156763792037964},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4220374822616577},{"id":"https://openalex.org/C2778753846","wikidata":"https://www.wikidata.org/wiki/Q6554239","display_name":"Link (geometry)","level":2,"score":0.41463911533355713},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.34646376967430115},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.23251736164093018},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2047443985939026},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12262877821922302},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/978-3-642-31830-6_26","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-642-31830-6_26","pdf_url":"https://link.springer.com/content/pdf/10.1007/978-3-642-31830-6_26.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":{"id":"doi:10.1007/978-3-642-31830-6_26","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-642-31830-6_26","pdf_url":"https://link.springer.com/content/pdf/10.1007/978-3-642-31830-6_26.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4232967162","display_name":"Bisociation Networks for Creative Information Discovery","funder_award_id":"211898","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5483342299","display_name":null,"funder_award_id":"FP7-ICT","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5541357959","display_name":null,"funder_award_id":"7th Framework Programme","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G645663373","display_name":null,"funder_award_id":"7th Framework","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6577931256","display_name":null,"funder_award_id":"118653","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321108","display_name":"Academy of Finland","ror":"https://ror.org/05k73zm37"},{"id":"https://openalex.org/F4320338370","display_name":"FP7 Information and Communication Technologies","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W31445736.pdf","grobid_xml":"https://content.openalex.org/works/W31445736.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W52621068","https://openalex.org/W189143987","https://openalex.org/W199949492","https://openalex.org/W1509396824","https://openalex.org/W1517637414","https://openalex.org/W1556758605","https://openalex.org/W1588510915","https://openalex.org/W1835571316","https://openalex.org/W2017102965","https://openalex.org/W2026417691","https://openalex.org/W2037933327","https://openalex.org/W2047205327","https://openalex.org/W2052631868","https://openalex.org/W2056285697","https://openalex.org/W2066636486","https://openalex.org/W2096525273","https://openalex.org/W2096646197","https://openalex.org/W2097391913","https://openalex.org/W2103017472","https://openalex.org/W2107580398","https://openalex.org/W2113613985","https://openalex.org/W2116423958","https://openalex.org/W2117831564","https://openalex.org/W2117889403","https://openalex.org/W2149194035","https://openalex.org/W2154454189","https://openalex.org/W2167064216","https://openalex.org/W2171437346","https://openalex.org/W2561675875","https://openalex.org/W2772934464","https://openalex.org/W4211208250","https://openalex.org/W4231041617","https://openalex.org/W4232932184","https://openalex.org/W4320800138"],"related_works":["https://openalex.org/W2155492529","https://openalex.org/W4252504573","https://openalex.org/W2120890012","https://openalex.org/W4283723149","https://openalex.org/W15348386","https://openalex.org/W2286239702","https://openalex.org/W782572168","https://openalex.org/W2605630948","https://openalex.org/W1982109448","https://openalex.org/W47355381"],"abstract_inverted_index":{"Biomine":[0,54,71,89],"is":[1,109],"a":[2,45,52],"biological":[3,14,81,120],"graph":[4,61,72],"database":[5],"constructed":[6],"from":[7],"public":[8],"databases.":[9],"Its":[10],"entities":[11,34,95],"(vertices)":[12],"include":[13],"concepts":[15],"(such":[16],"as":[17,24,26,40],"genes,":[18],"proteins,":[19],"tissues,":[20],"processes":[21],"and":[22,29,64,83,96,112],"phenotypes,":[23],"well":[25],"scientific":[27],"articles)":[28],"relations":[30,100],"(edges)":[31],"between":[32,101,119],"these":[33],"correspond":[35],"to":[36,51],"real-world":[37],"phenomena":[38],"such":[39,80],"\u201ca":[41],"gene":[42],"codes":[43],"for":[44,58,62,116],"protein\u201d":[46],"or":[47],"\u201can":[48],"article":[49],"refers":[50],"phenotype\u201d.":[53],"also":[55,75],"provides":[56],"tools":[57],"querying":[59],"the":[60,70],"connections":[63],"visualizing":[65],"them":[66],"interactively.":[67],"We":[68,74],"describe":[69],"database.":[73],"discuss":[76],"link":[77,86],"discovery":[78],"in":[79],"graphs":[82],"review":[84],"possible":[85],"prediction":[87],"measures.":[88],"currently":[90],"contains":[91],"over":[92,97],"1":[93],"million":[94,99],"8":[98],"them,":[102],"with":[103],"focus":[104],"on":[105],"human":[106],"genetics.":[107],"It":[108],"available":[110],"on-line":[111],"can":[113],"be":[114],"queried":[115],"connecting":[117],"subgraphs":[118],"entities.":[121]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
