{"id":"https://openalex.org/W2165901933","doi":"https://doi.org/10.1145/2506182.2506200","title":"Linked cancer genome atlas database","display_name":"Linked cancer genome atlas database","publication_year":2013,"publication_date":"2013-09-04","ids":{"openalex":"https://openalex.org/W2165901933","doi":"https://doi.org/10.1145/2506182.2506200","mag":"2165901933"},"language":"en","primary_location":{"id":"doi:10.1145/2506182.2506200","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2506182.2506200","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 9th International Conference on Semantic Systems","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://zenodo.org/record/3438997","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019194095","display_name":"Muhammad Saleem","orcid":"https://orcid.org/0000-0001-9648-5417"},"institutions":[{"id":"https://openalex.org/I926574661","display_name":"Leipzig University","ror":"https://ror.org/03s7gtk40","country_code":"DE","type":"education","lineage":["https://openalex.org/I926574661"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Muhammad Saleem","raw_affiliation_strings":["Universit\u00e4t Leipzig, IFI/AKSW, Leipzig"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, Leipzig","institution_ids":["https://openalex.org/I926574661"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041169967","display_name":"Shanmukha Sampath Padmanabhuni","orcid":"https://orcid.org/0000-0002-3090-9181"},"institutions":[{"id":"https://openalex.org/I188760350","display_name":"Ollscoil na Gaillimhe \u2013 University of Galway","ror":"https://ror.org/03bea9k73","country_code":"IE","type":"education","lineage":["https://openalex.org/I188760350"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Shanmukha S. Padmanabhuni","raw_affiliation_strings":["National University of Ireland Galway (NUIG), Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National University of Ireland Galway (NUIG), Ireland","institution_ids":["https://openalex.org/I188760350"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038745720","display_name":"Axel-Cyrille Ngonga Ngomo","orcid":"https://orcid.org/0000-0001-7112-3516"},"institutions":[{"id":"https://openalex.org/I926574661","display_name":"Leipzig University","ror":"https://ror.org/03s7gtk40","country_code":"DE","type":"education","lineage":["https://openalex.org/I926574661"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Axel-Cyrille Ngonga Ngomo","raw_affiliation_strings":["Universit\u00e4t Leipzig, IFI/AKSW, Leipzig"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, Leipzig","institution_ids":["https://openalex.org/I926574661"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012322429","display_name":"Jonas S. Almeida","orcid":"https://orcid.org/0000-0002-7883-7922"},"institutions":[{"id":"https://openalex.org/I32389192","display_name":"University of Alabama at Birmingham","ror":"https://ror.org/008s83205","country_code":"US","type":"education","lineage":["https://openalex.org/I32389192"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonas S. Almeida","raw_affiliation_strings":["University of Alabama, Birmingham"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Alabama, Birmingham","institution_ids":["https://openalex.org/I32389192"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071104283","display_name":"Stefan Decker","orcid":"https://orcid.org/0000-0001-6324-7164"},"institutions":[{"id":"https://openalex.org/I188760350","display_name":"Ollscoil na Gaillimhe \u2013 University of Galway","ror":"https://ror.org/03bea9k73","country_code":"IE","type":"education","lineage":["https://openalex.org/I188760350"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Stefan Decker","raw_affiliation_strings":["National University of Ireland Galway (NUIG), Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National University of Ireland Galway (NUIG), Ireland","institution_ids":["https://openalex.org/I188760350"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086141196","display_name":"Helena Deus","orcid":"https://orcid.org/0000-0003-2995-568X"},"institutions":[{"id":"https://openalex.org/I4392738181","display_name":"Foundation Medicine (United States)","ror":"https://ror.org/02ackr434","country_code":null,"type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4392738181"]}],"countries":[],"is_corresponding":false,"raw_author_name":"Helena F. Deus","raw_affiliation_strings":["Foundation Medicine Inc. One Kendal Square Cambridge, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Foundation Medicine Inc. One Kendal Square Cambridge, MA","institution_ids":["https://openalex.org/I4392738181"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":18.4549,"has_fulltext":false,"cited_by_count":31,"citation_normalized_percentile":{"value":0.9945708,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"129","last_page":"134"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9973999857902527,"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":0.9973999857902527,"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":0.9958000183105469,"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":0.9944999814033508,"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":0.7374534606933594},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.6293627023696899},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.559645414352417},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.4532323181629181},{"id":"https://openalex.org/keywords/atlas","display_name":"Atlas (anatomy)","score":0.4444190263748169},{"id":"https://openalex.org/keywords/sparql","display_name":"SPARQL","score":0.4334734082221985},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.4218662679195404},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.42127859592437744},{"id":"https://openalex.org/keywords/linked-data","display_name":"Linked data","score":0.41286787390708923},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.39171040058135986},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3371864855289459},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.33498936891555786},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.32854121923446655},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.19206950068473816},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.14586660265922546},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12760472297668457},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.08906364440917969}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7374534606933594},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.6293627023696899},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.559645414352417},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.4532323181629181},{"id":"https://openalex.org/C2776673561","wikidata":"https://www.wikidata.org/wiki/Q655357","display_name":"Atlas (anatomy)","level":2,"score":0.4444190263748169},{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.4334734082221985},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.4218662679195404},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.42127859592437744},{"id":"https://openalex.org/C69075417","wikidata":"https://www.wikidata.org/wiki/Q515701","display_name":"Linked data","level":3,"score":0.41286787390708923},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.39171040058135986},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3371864855289459},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.33498936891555786},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.32854121923446655},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.19206950068473816},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.14586660265922546},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12760472297668457},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.08906364440917969},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/2506182.2506200","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2506182.2506200","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 9th International Conference on Semantic Systems","raw_type":"proceedings-article"},{"id":"pmh:oai:zenodo.org:3438997","is_oa":true,"landing_page_url":"https://zenodo.org/record/3438997","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/conferencePaper"}],"best_oa_location":{"id":"pmh:oai:zenodo.org:3438997","is_oa":true,"landing_page_url":"https://zenodo.org/record/3438997","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/conferencePaper"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.6399999856948853,"display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G451855704","display_name":null,"funder_award_id":"FP7-Granatum: RE7098","funder_id":"https://openalex.org/F4320334960","funder_display_name":"Seventh Framework Programme"},{"id":"https://openalex.org/G7774457187","display_name":null,"funder_award_id":"SFI/08/CE/I1380, SFI/12/RC/2289","funder_id":"https://openalex.org/F4320320847","funder_display_name":"Science Foundation Ireland"}],"funders":[{"id":"https://openalex.org/F4320320847","display_name":"Science Foundation Ireland","ror":"https://ror.org/0271asj38"},{"id":"https://openalex.org/F4320334960","display_name":"Seventh Framework Programme","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":14,"referenced_works":["https://openalex.org/W1485293642","https://openalex.org/W1982017597","https://openalex.org/W1998781826","https://openalex.org/W1998901603","https://openalex.org/W2021341670","https://openalex.org/W2029470215","https://openalex.org/W2062926086","https://openalex.org/W2066255572","https://openalex.org/W2103643415","https://openalex.org/W2104989537","https://openalex.org/W2105528101","https://openalex.org/W2121906867","https://openalex.org/W2124558732","https://openalex.org/W2131563181"],"related_works":["https://openalex.org/W1550792544","https://openalex.org/W2155929612","https://openalex.org/W199330785","https://openalex.org/W2267627180","https://openalex.org/W2402575682","https://openalex.org/W2396236980","https://openalex.org/W2187569332","https://openalex.org/W98016204","https://openalex.org/W602498611","https://openalex.org/W2741022245"],"abstract_inverted_index":{"The":[0,178],"Cancer":[1,220,238],"Genome":[2,221,239],"Atlas":[3,240],"(TCGA)":[4],"is":[5,28,79,180],"a":[6,68,142],"multidisciplinary,":[7],"multi-institutional":[8],"pilot":[9],"project":[10,27,132],"to":[11,29,41,49,75,97,119,138,171,217],"create":[12],"an":[13,31,211],"atlas":[14,61],"of":[15,22,25,70,109,189,193,236],"genetic":[16],"mutations":[17],"responsible":[18],"for":[19,33,103,149],"cancer.":[20],"One":[21],"the":[23,35,47,58,91,99,106,122,125,130,135,172,181,187,219,231,237],"aims":[24],"this":[26,156,243],"develop":[30],"infrastructure":[32],"making":[34],"cancer":[36,43,59],"related":[37],"data":[38,56,78,123,136,164,184,199,234],"publicly":[39,147,205],"accessible,":[40],"enable":[42],"researchers":[44],"anywhere":[45],"around":[46],"world":[48],"make":[50],"and":[51,89,145,152,167,214],"validate":[52],"important":[53],"discoveries.":[54],"However,":[55],"in":[57,67,95,117,124,128,242],"genome":[60],"are":[62,112,228],"organized":[63],"as":[64,82],"text":[65,93],"archives":[66,88],"set":[69],"directories.":[71],"Devising":[72],"bioinformatics":[73],"applications":[74],"analyse":[76],"such":[77],"still":[80],"challenging,":[81],"it":[83],"requires":[84],"downloading":[85],"very":[86],"large":[87],"parsing":[90],"relevant":[92],"files":[94],"order":[96,118],"collect":[98],"critical":[100],"co-variates":[101],"necessary":[102],"analysis.":[104],"Furthermore,":[105],"various":[107],"types":[108],"experimental":[110],"results":[111],"not":[113],"connected":[114],"biologically,":[115],"i.e.":[116],"truly":[120],"exploit":[121],"genome-wide":[126],"context":[127],"which":[129,227],"TCGA":[131,166],"was":[133],"devised,":[134],"needs":[137],"be":[139,202],"converted":[140],"into":[141],"structured":[143],"representation":[144,235],"made":[146],"available":[148,206],"remote":[150],"querying":[151],"virtual":[153],"integration.":[154],"In":[155],"work,":[157],"we":[158],"address":[159],"these":[160],"issues":[161],"by":[162,230],"RDFizing":[163],"from":[165],"linking":[168],"its":[169],"elements":[170],"Linked":[173],"Open":[174],"Data":[175],"(LOD)":[176],"Cloud.":[177],"outcome":[179],"largest":[182],"LOD":[183],"source":[185,200],"(to":[186],"best":[188],"our":[190],"knowledge)":[191],"comprising":[192],"over":[194],"30":[195],"billion":[196],"triples.":[197],"This":[198],"can":[201],"exploited":[203],"through":[204],"SPARQL":[207],"endpoints,":[208],"thus":[209],"providing":[210],"easy-to-use,":[212],"time-efficient,":[213],"scalable":[215],"solution":[216],"accessing":[218],"Atlas.":[222],"We":[223],"also":[224],"describe":[225],"showcases":[226],"enabled":[229],"new":[232],"linked":[233],"presented":[241],"paper.":[244]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":1}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2016-06-24T00:00:00"}
