{"id":"https://openalex.org/W2104060732","doi":"https://doi.org/10.1186/2041-1480-5-47","title":"TopFed: TCGA Tailored Federated Query Processing and Linking to LOD","display_name":"TopFed: TCGA Tailored Federated Query Processing and Linking to LOD","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W2104060732","doi":"https://doi.org/10.1186/2041-1480-5-47","mag":"2104060732","pmid":"https://pubmed.ncbi.nlm.nih.gov/25937882"},"language":"en","primary_location":{"id":"doi:10.1186/2041-1480-5-47","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-47","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-47","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-47","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":true,"raw_author_name":"Muhammad Saleem","raw_affiliation_strings":["Universit\u00e4t Leipzig, IFI/AKSW, PO 100920, D-04009 Leipzig, Germany","Universit\u00e4t Leipzig, IFI/AKSW, Leipzig, Germany#TAB#"],"affiliations":[{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, PO 100920, D-04009 Leipzig, Germany","institution_ids":["https://openalex.org/I926574661"]},{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, Leipzig, Germany#TAB#","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":["Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, Ireland"],"affiliations":[{"raw_affiliation_string":"Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, 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, PO 100920, D-04009 Leipzig, Germany","Universit\u00e4t Leipzig, IFI/AKSW, Leipzig, Germany#TAB#"],"affiliations":[{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, PO 100920, D-04009 Leipzig, Germany","institution_ids":["https://openalex.org/I926574661"]},{"raw_affiliation_string":"Universit\u00e4t Leipzig, IFI/AKSW, Leipzig, Germany#TAB#","institution_ids":["https://openalex.org/I926574661"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071290931","display_name":"Aftab Iqbal","orcid":"https://orcid.org/0000-0002-2234-2592"},"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":"Aftab Iqbal","raw_affiliation_strings":["Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, Ireland"],"affiliations":[{"raw_affiliation_string":"Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, Ireland","institution_ids":["https://openalex.org/I188760350"]}]},{"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":["Division Informatics, Department of Pathology, University of Alabama, Birmingham, USA"],"affiliations":[{"raw_affiliation_string":"Division Informatics, Department of Pathology, University of Alabama, Birmingham, USA","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":["Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, Ireland"],"affiliations":[{"raw_affiliation_string":"Insight Centre for Data Analytics, National University of Ireland (NUIG), Galway, 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/I4210157916","display_name":"Tech Foundation","ror":"https://ror.org/04vfkg585","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210157916"]},{"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":["US"],"is_corresponding":false,"raw_author_name":"Helena F. Deus","raw_affiliation_strings":["Foundation Medicine, Inc, Cambridge, MA 02141 USA","Foundation Medicine, Inc., Cambridge MA 02141, USA"],"affiliations":[{"raw_affiliation_string":"Foundation Medicine, Inc, Cambridge, MA 02141 USA","institution_ids":["https://openalex.org/I4210157916"]},{"raw_affiliation_string":"Foundation Medicine, Inc., Cambridge MA 02141, USA","institution_ids":["https://openalex.org/I4392738181"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5019194095"],"corresponding_institution_ids":["https://openalex.org/I926574661"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1337,"currency":"EUR","value_usd":1441},"fwci":1.7785,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.83695098,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"5","issue":"1","first_page":"47","last_page":"47"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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":0.9901999831199646,"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":0.9868000149726868,"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/sparql","display_name":"SPARQL","score":0.9351904392242432},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8833240270614624},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.559563398361206},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.5477494597434998},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5422627925872803},{"id":"https://openalex.org/keywords/linked-data","display_name":"Linked data","score":0.45083630084991455},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.3656092882156372},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.35388949513435364},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.346014142036438}],"concepts":[{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.9351904392242432},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8833240270614624},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.559563398361206},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.5477494597434998},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5422627925872803},{"id":"https://openalex.org/C69075417","wikidata":"https://www.wikidata.org/wiki/Q515701","display_name":"Linked data","level":3,"score":0.45083630084991455},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.3656092882156372},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.35388949513435364},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.346014142036438}],"mesh":[],"locations_count":7,"locations":[{"id":"doi:10.1186/2041-1480-5-47","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-47","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-47","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},{"id":"pmid:25937882","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25937882","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":"Journal of biomedical semantics","raw_type":null},{"id":"pmh:oai:aran.library.nuigalway.ie/:10379/5449","is_oa":false,"landing_page_url":"http://hdl.handle.net/10379/5449","pdf_url":null,"source":{"id":"https://openalex.org/S4377196322","display_name":"ARAN (University of Galway Research Repository) (Ollscoil na Gaillimhe \u2013 University of Galway)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I188760350","host_organization_name":"Ollscoil na Gaillimhe \u2013 University of Galway","host_organization_lineage":["https://openalex.org/I188760350"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:http://www.rian.ie/161324/","is_oa":false,"landing_page_url":"http://hdl.handle.net/10379/13779","pdf_url":null,"source":{"id":"https://openalex.org/S4306400033","display_name":"Arrow@dit (Dublin Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I115570527","host_organization_name":"Dublin Institute of Technology","host_organization_lineage":["https://openalex.org/I115570527"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.654.988","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.654.988","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://svn.aksw.org/papers/2014/TopFed_JBMS/public.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:3382267","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4417511","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"},{"id":"pmh:oai:qucosa:de:qucosa:13048","is_oa":true,"landing_page_url":"http://ul.qucosa.de/id/qucosa%3A13048","pdf_url":null,"source":{"id":"https://openalex.org/S4377196312","display_name":"Qucosa (Saxon State and University Library Dresden)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I3132420320","host_organization_name":"SLUB Dresden","host_organization_lineage":["https://openalex.org/I3132420320"],"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":"Journal of Biomedical Semantics 2014, 5:47 doi:10.1186/2041-1480-5-47","raw_type":"doc-type:Text"}],"best_oa_location":{"id":"doi:10.1186/2041-1480-5-47","is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-5-47","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-5-47","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6052429835","display_name":null,"funder_award_id":"(DFG)","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320325298","display_name":"Universit\u00e4t Leipzig","ror":"https://ror.org/03s7gtk40"},{"id":"https://openalex.org/F4320334461","display_name":"Foundation Medicine","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104060732.pdf"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W102420887","https://openalex.org/W140325011","https://openalex.org/W153622350","https://openalex.org/W1484056211","https://openalex.org/W1485293642","https://openalex.org/W1516511413","https://openalex.org/W1555486317","https://openalex.org/W1565421110","https://openalex.org/W1808100928","https://openalex.org/W1841919535","https://openalex.org/W1982017597","https://openalex.org/W1998781826","https://openalex.org/W1998901603","https://openalex.org/W2019176983","https://openalex.org/W2021341670","https://openalex.org/W2029470215","https://openalex.org/W2034103898","https://openalex.org/W2057393200","https://openalex.org/W2062926086","https://openalex.org/W2066255572","https://openalex.org/W2081193615","https://openalex.org/W2081623678","https://openalex.org/W2102240299","https://openalex.org/W2103643415","https://openalex.org/W2104060732","https://openalex.org/W2104989537","https://openalex.org/W2105528101","https://openalex.org/W2121906867","https://openalex.org/W2124386633","https://openalex.org/W2124558732","https://openalex.org/W2131563181","https://openalex.org/W2148798306","https://openalex.org/W2158441613","https://openalex.org/W2161289668","https://openalex.org/W2165901933","https://openalex.org/W2181707122","https://openalex.org/W2185074001","https://openalex.org/W2210169352","https://openalex.org/W2248646379","https://openalex.org/W2265585838","https://openalex.org/W2274744161","https://openalex.org/W2326879997","https://openalex.org/W2470348663","https://openalex.org/W2912138688","https://openalex.org/W4297952403","https://openalex.org/W4298043192","https://openalex.org/W6822266525"],"related_works":["https://openalex.org/W199330785","https://openalex.org/W2615202182","https://openalex.org/W2767591199","https://openalex.org/W98016204","https://openalex.org/W2101525042","https://openalex.org/W2776293731","https://openalex.org/W4388184885","https://openalex.org/W4322622679","https://openalex.org/W2563388676","https://openalex.org/W3150241097"],"abstract_inverted_index":{"With":[0],"TopFed,":[1],"we":[2],"aim":[3],"to":[4,33,54],"offer":[5],"biomedical":[6,31],"scientists":[7],"a":[8],"single-point-of-access":[9],"through":[10],"which":[11],"distributed":[12],"TCGA":[13,40],"data":[14,47],"can":[15,25],"be":[16],"accessed":[17],"in":[18,29],"unison.":[19],"We":[20],"believe":[21],"the":[22,30,42,49],"proposed":[23],"system":[24],"greatly":[26],"help":[27],"researchers":[28],"domain":[32],"carry":[34],"out":[35],"their":[36],"research":[37],"effectively":[38],"with":[39],"as":[41],"amount":[43],"and":[44,58],"diversity":[45],"of":[46,51],"exceeds":[48],"ability":[50],"local":[52],"resources":[53],"handle":[55],"its":[56],"retrieval":[57],"parsing.":[59]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":3}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
