{"id":"https://openalex.org/W2911606844","doi":"https://doi.org/10.1186/s13040-018-0190-8","title":"Use case driven evaluation of open databases for pediatric cancer research","display_name":"Use case driven evaluation of open databases for pediatric cancer research","publication_year":2019,"publication_date":"2019-01-15","ids":{"openalex":"https://openalex.org/W2911606844","doi":"https://doi.org/10.1186/s13040-018-0190-8","mag":"2911606844","pmid":"https://pubmed.ncbi.nlm.nih.gov/30675185"},"language":"en","primary_location":{"id":"doi:10.1186/s13040-018-0190-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-018-0190-8","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-018-0190-8","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-018-0190-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002021708","display_name":"Fleur Jeanquartier","orcid":"https://orcid.org/0000-0001-8607-9255"},"institutions":[{"id":"https://openalex.org/I202276237","display_name":"Medical University of Graz","ror":"https://ror.org/02n0bts35","country_code":"AT","type":"education","lineage":["https://openalex.org/I202276237"]},{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":true,"raw_author_name":"Fleur Jeanquartier","raw_affiliation_strings":["1Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria"],"raw_orcid":"https://orcid.org/0000-0001-8607-9255","affiliations":[{"raw_affiliation_string":"1Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","institution_ids":["https://openalex.org/I202276237"]},{"raw_affiliation_string":"Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","institution_ids":["https://openalex.org/I4092182"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044273117","display_name":"Claire Jean-Quartier","orcid":"https://orcid.org/0000-0002-0840-2173"},"institutions":[{"id":"https://openalex.org/I202276237","display_name":"Medical University of Graz","ror":"https://ror.org/02n0bts35","country_code":"AT","type":"education","lineage":["https://openalex.org/I202276237"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Claire Jean-Quartier","raw_affiliation_strings":["2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","institution_ids":["https://openalex.org/I202276237"]},{"raw_affiliation_string":"Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036, Austria","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034657358","display_name":"Andreas Holzinger","orcid":"https://orcid.org/0000-0002-6786-5194"},"institutions":[{"id":"https://openalex.org/I202276237","display_name":"Medical University of Graz","ror":"https://ror.org/02n0bts35","country_code":"AT","type":"education","lineage":["https://openalex.org/I202276237"]},{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Andreas Holzinger","raw_affiliation_strings":["1Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"2Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036 Austria","institution_ids":["https://openalex.org/I202276237"]},{"raw_affiliation_string":"Institute of Interactive Systems and Data Science, Graz University of Technology, Graz, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"Holzinger Group HCI-KDD, Institute for Medical Informatics, Statistics and Documentation, Medical University Graz, Auenbruggerplatz 2/V, Graz, 8036, Austria","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5002021708"],"corresponding_institution_ids":["https://openalex.org/I202276237","https://openalex.org/I4092182"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.1967,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.78219076,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"12","issue":"1","first_page":"2","last_page":"2"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.34470000863075256,"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":0.34470000863075256,"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/T10737","display_name":"Health Literacy and Information Accessibility","score":0.06549999862909317,"subfield":{"id":"https://openalex.org/subfields/3600","display_name":"General Health Professions"},"field":{"id":"https://openalex.org/fields/36","display_name":"Health Professions"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.052799999713897705,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.6490787267684937},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4786345064640045},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.42621034383773804},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3314765989780426}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6490787267684937},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4786345064640045},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.42621034383773804},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3314765989780426}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13040-018-0190-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-018-0190-8","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-018-0190-8","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},{"id":"pmid:30675185","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30675185","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":"BioData mining","raw_type":null},{"id":"pmh:oai:doaj.org/article:2700ad4c15bd40089dc4c9e00cd97972","is_oa":true,"landing_page_url":"https://doaj.org/article/2700ad4c15bd40089dc4c9e00cd97972","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Mining, Vol 12, Iss 1, Pp 1-20 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5322033","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6334395","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6334395","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6334395","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Min","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13040-018-0190-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-018-0190-8","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-018-0190-8","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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":"BioData Mining","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.4099999964237213,"display_name":"Partnerships for the goals"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320308228","display_name":"BMC Software","ror":"https://ror.org/02t1a0v32"},{"id":"https://openalex.org/F4320310430","display_name":"TU Graz, Internationale Beziehungen und Mobilit\u00e4tsprogramme","ror":"https://ror.org/00d7xrm67"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2911606844.pdf","grobid_xml":"https://content.openalex.org/works/W2911606844.grobid-xml"},"referenced_works_count":70,"referenced_works":["https://openalex.org/W148924540","https://openalex.org/W1567333450","https://openalex.org/W1844417590","https://openalex.org/W1856405414","https://openalex.org/W1920063780","https://openalex.org/W1951995880","https://openalex.org/W1973751980","https://openalex.org/W2004953476","https://openalex.org/W2005671942","https://openalex.org/W2022266045","https://openalex.org/W2023910541","https://openalex.org/W2038622031","https://openalex.org/W2059300459","https://openalex.org/W2070338060","https://openalex.org/W2085797732","https://openalex.org/W2096606586","https://openalex.org/W2097120541","https://openalex.org/W2105797771","https://openalex.org/W2114843025","https://openalex.org/W2118527670","https://openalex.org/W2121906867","https://openalex.org/W2124045889","https://openalex.org/W2124960242","https://openalex.org/W2134118606","https://openalex.org/W2137692939","https://openalex.org/W2149441684","https://openalex.org/W2149493207","https://openalex.org/W2151311897","https://openalex.org/W2158679147","https://openalex.org/W2167005515","https://openalex.org/W2167532631","https://openalex.org/W2239788015","https://openalex.org/W2323880852","https://openalex.org/W2329659234","https://openalex.org/W2410714231","https://openalex.org/W2414679742","https://openalex.org/W2433123945","https://openalex.org/W2441924832","https://openalex.org/W2490083709","https://openalex.org/W2497199005","https://openalex.org/W2511189429","https://openalex.org/W2556445922","https://openalex.org/W2561713551","https://openalex.org/W2588426545","https://openalex.org/W2588678783","https://openalex.org/W2607450268","https://openalex.org/W2609146840","https://openalex.org/W2620294703","https://openalex.org/W2737542366","https://openalex.org/W2738360052","https://openalex.org/W2740817532","https://openalex.org/W2747373163","https://openalex.org/W2757281736","https://openalex.org/W2759573042","https://openalex.org/W2763381187","https://openalex.org/W2785620393","https://openalex.org/W2789869568","https://openalex.org/W2790153693","https://openalex.org/W2792518396","https://openalex.org/W2792654616","https://openalex.org/W2794820058","https://openalex.org/W2801057456","https://openalex.org/W2801717201","https://openalex.org/W2804291108","https://openalex.org/W2807132016","https://openalex.org/W2809361791","https://openalex.org/W2952987252","https://openalex.org/W3104123570","https://openalex.org/W4230489994","https://openalex.org/W4245031745"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"BACKGROUND:":[0],"A":[1],"plethora":[2],"of":[3,17,46,130,137,164,173,202,305],"Web":[4,79,159,283],"resources":[5,60,80,100,122,160,284],"are":[6,68,102,105,231,289],"available":[7],"offering":[8,297],"information":[9,55,165,239,280],"on":[10,37,48,81,84,134,224,240,269,285],"clinical,":[11],"pre-clinical,":[12],"genomic":[13,203],"and":[14,28,33,61,87,104,141,167,180,191,214,236,266,279,292,310],"theoretical":[15],"aspects":[16],"cancer,":[18],"including":[19],"not":[20,69],"only":[21],"the":[22,135,187,258,270],"comprehensive":[23],"cancer":[24,50,75,82,299,318],"projects":[25,36,312],"as":[26,41,91,93,146,148,249,251,327,329],"ICGC":[27,205],"TCGA,":[29],"but":[30],"also":[31,152],"less-known":[32,293],"more":[34],"specialized":[35],"pediatric":[38,73,120,287,307],"diseases":[39],"such":[40],"PCGP.":[42],"However,":[43],"in":[44,162],"case":[45,273],"data":[47,66,86,149,206,212,260,277,308],"childhood":[49,317],"there":[51],"is":[52,321],"very":[53],"little":[54],"openly":[56],"available.":[57],"Several":[58],"web-based":[59],"tools":[62,185,263],"offer":[63],"general":[64],"biomedical":[65],"which":[67,101],"purpose-built,":[70],"for":[71,211,316,324],"neither":[72],"nor":[74],"analysis.":[76],"Additionally,":[77],"many":[78],"focus":[83,222],"incidence":[85],"statistical":[88],"social":[89],"characteristics":[90],"well":[92,147,250,328],"self-regulating":[94],"communities.":[95],"METHODS:":[96],"We":[97],"summarize":[98],"those":[99,296],"open":[103],"considered":[106],"to":[107,117,217,295],"support":[108],"scientific":[109],"fundamental":[110,326],"research,":[111,319],"while":[112,186],"we":[113],"address":[114],"our":[115],"comparison":[116],"11":[118],"identified":[119],"cancer-specific":[121],"(5":[123],"tools,":[124],"6":[125],"databases).":[126],"The":[127],"evaluation":[128],"consists":[129],"5":[131],"use":[132,272],"cases":[133],"example":[136],"brain":[138],"tumor":[139],"research":[140,300],"covers":[142],"user-defined":[143],"search":[144],"scenarios":[145],"mining":[150],"tasks,":[151],"examining":[153],"interactive":[154],"visual":[155,183],"analysis":[156,184,201,213],"features.":[157,178],"RESULTS:":[158],"differ":[161],"terms":[163],"quantity":[166,278],"presentation.":[168],"Pedican":[169],"lists":[170],"an":[171,199,215],"abundance":[172],"entries":[174],"with":[175],"few":[176],"selection":[177],"PeCan":[179,235],"PedcBioPortal":[181],"include":[182],"latter":[188],"integrates":[189],"published":[190],"new":[192],"consortia-based":[193],"data.":[194,204,220,301],"UCSC":[195],"Xena":[196],"Browser":[197],"offers":[198],"in-depth":[200],"portal":[207],"provides":[208],"various":[209],"features":[210],"option":[216],"submit":[218],"own":[219],"Its":[221],"lies":[223],"adult":[225,298],"Pan-Cancer":[226,229,311],"projects.":[227],"Pediatric":[228],"datasets":[230],"being":[232],"integrated":[233],"into":[234],"PedcBioPortal.":[237],"Comparing":[238],"prominent":[241],"mutations":[242],"within":[243],"glioma":[244],"discloses":[245],"well-known,":[246],"unknown,":[247],"possible,":[248],"inapplicable":[252],"biomarkers.":[253],"This":[254],"summary":[255],"further":[256],"emphasizes":[257],"varying":[259],"allocation.":[261],"Tested":[262],"show":[264],"advantages":[265],"disadvantages,":[267],"depending":[268],"respective":[271],"scenario,":[274],"providing":[275],"inhomogeneous":[276],"specifics.":[281],"CONCLUSIONS:":[282],"specific":[286],"cancers":[288],"less":[290],"abundant":[291],"compared":[294],"Meanwhile,":[302],"current":[303],"efforts":[304],"ongoing":[306],"collection":[309],"indicate":[313],"future":[314],"opportunities":[315],"that":[320],"greatly":[322],"needed":[323],"both":[325],"clinical":[330],"research.":[331]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":2}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
