{"id":"https://openalex.org/W4410447817","doi":"https://doi.org/10.3233/shti250281","title":"Building a Knowledge Base for Variant Annotation Using Therapy Recommendations in cBioPortal","display_name":"Building a Knowledge Base for Variant Annotation Using Therapy Recommendations in cBioPortal","publication_year":2025,"publication_date":"2025-05-15","ids":{"openalex":"https://openalex.org/W4410447817","doi":"https://doi.org/10.3233/shti250281","pmid":"https://pubmed.ncbi.nlm.nih.gov/40380393"},"language":"en","primary_location":{"id":"doi:10.3233/shti250281","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti250281","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI250281","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"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":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI250281","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070904045","display_name":"Dominik Boehm","orcid":"https://orcid.org/0009-0001-2887-7109"},"institutions":[{"id":"https://openalex.org/I181369854","display_name":"Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg","ror":"https://ror.org/00f7hpc57","country_code":"DE","type":"education","lineage":["https://openalex.org/I181369854"]},{"id":"https://openalex.org/I4210088053","display_name":"Universit\u00e4tsklinikum Erlangen","ror":"https://ror.org/0030f2a11","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210088053"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dominik Boehm","raw_affiliation_strings":["Bavarian Cancer Research Center (BZKF), Erlangen, Germany","Medical Center for Information and Communication Technology, Universit\u00e4tsklinikum Erlangen, Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg, Erlangen, Germany"],"raw_orcid":"https://orcid.org/0009-0001-2887-7109","affiliations":[{"raw_affiliation_string":"Bavarian Cancer Research Center (BZKF), Erlangen, Germany","institution_ids":[]},{"raw_affiliation_string":"Medical Center for Information and Communication Technology, Universit\u00e4tsklinikum Erlangen, Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg, Erlangen, Germany","institution_ids":["https://openalex.org/I181369854","https://openalex.org/I4210088053"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077283446","display_name":"Niklas Reimer","orcid":"https://orcid.org/0000-0002-0491-3929"},"institutions":[{"id":"https://openalex.org/I4210112713","display_name":"University Hospital Schleswig-Holstein","ror":"https://ror.org/01tvm6f46","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210112713"]},{"id":"https://openalex.org/I9341345","display_name":"University of L\u00fcbeck","ror":"https://ror.org/00t3r8h32","country_code":"DE","type":"education","lineage":["https://openalex.org/I9341345"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Niklas Reimer","raw_affiliation_strings":["Group for Medical Systems Biology, L\u00fcbeck Institute of Experimental Dermatology, University of L\u00fcbeck, Germany","Medical Data Integration Center, University Hospital Schleswig-Holstein, Luebeck, Germany"],"raw_orcid":"https://orcid.org/0000-0002-0491-3929","affiliations":[{"raw_affiliation_string":"Group for Medical Systems Biology, L\u00fcbeck Institute of Experimental Dermatology, University of L\u00fcbeck, Germany","institution_ids":["https://openalex.org/I9341345"]},{"raw_affiliation_string":"Medical Data Integration Center, University Hospital Schleswig-Holstein, Luebeck, Germany","institution_ids":["https://openalex.org/I4210112713","https://openalex.org/I9341345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080416734","display_name":"Jan Christoph","orcid":"https://orcid.org/0000-0003-4369-3591"},"institutions":[{"id":"https://openalex.org/I68956291","display_name":"Martin Luther University Halle-Wittenberg","ror":"https://ror.org/05gqaka33","country_code":"DE","type":"education","lineage":["https://openalex.org/I68956291"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jan Christoph","raw_affiliation_strings":["Junior Research Group (Bio-)Medical Data Science, Faculty of Medicine, Martin-Luther-University Halle-Wittenberg, Halle (Saale), Germany"],"raw_orcid":"https://orcid.org/0000-0003-4369-3591","affiliations":[{"raw_affiliation_string":"Junior Research Group (Bio-)Medical Data Science, Faculty of Medicine, Martin-Luther-University Halle-Wittenberg, Halle (Saale), Germany","institution_ids":["https://openalex.org/I68956291"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032305524","display_name":"Alexander Scheiter","orcid":"https://orcid.org/0000-0001-6734-261X"},"institutions":[{"id":"https://openalex.org/I60668342","display_name":"University of Regensburg","ror":"https://ror.org/01eezs655","country_code":"DE","type":"education","lineage":["https://openalex.org/I60668342"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alexander Scheiter","raw_affiliation_strings":["Institute of Pathology, University of Regensburg, Regensburg, Germany"],"raw_orcid":"https://orcid.org/0000-0001-6734-261X","affiliations":[{"raw_affiliation_string":"Institute of Pathology, University of Regensburg, Regensburg, Germany","institution_ids":["https://openalex.org/I60668342"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025720706","display_name":"Philipp Unberath","orcid":"https://orcid.org/0000-0002-1269-9360"},"institutions":[{"id":"https://openalex.org/I181369854","display_name":"Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg","ror":"https://ror.org/00f7hpc57","country_code":"DE","type":"education","lineage":["https://openalex.org/I181369854"]},{"id":"https://openalex.org/I4210088053","display_name":"Universit\u00e4tsklinikum Erlangen","ror":"https://ror.org/0030f2a11","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210088053"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Philipp Unberath","raw_affiliation_strings":["Medical Center for Information and Communication Technology, Universit\u00e4tsklinikum Erlangen, Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg, Erlangen, Germany","SRH Fuerth University of Applied Sciences, Fuerth, Germany"],"raw_orcid":"https://orcid.org/0000-0002-1269-9360","affiliations":[{"raw_affiliation_string":"Medical Center for Information and Communication Technology, Universit\u00e4tsklinikum Erlangen, Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg, Erlangen, Germany","institution_ids":["https://openalex.org/I181369854","https://openalex.org/I4210088053"]},{"raw_affiliation_string":"SRH Fuerth University of Applied Sciences, Fuerth, Germany","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.18065571,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"327","issue":null,"first_page":"98","last_page":"102"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9922999739646912,"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":0.9922999739646912,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9898999929428101,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9664000272750854,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.649651288986206},{"id":"https://openalex.org/keywords/informatics","display_name":"Informatics","score":0.5300374031066895},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4964032769203186},{"id":"https://openalex.org/keywords/health-informatics","display_name":"Health informatics","score":0.4681050479412079},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.42794644832611084},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.4134792387485504},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.33951103687286377},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.15786629915237427},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1527387797832489},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.11072978377342224}],"concepts":[{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.649651288986206},{"id":"https://openalex.org/C191630685","wikidata":"https://www.wikidata.org/wiki/Q4027615","display_name":"Informatics","level":2,"score":0.5300374031066895},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4964032769203186},{"id":"https://openalex.org/C145642194","wikidata":"https://www.wikidata.org/wiki/Q870895","display_name":"Health informatics","level":3,"score":0.4681050479412079},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.42794644832611084},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.4134792387485504},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.33951103687286377},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.15786629915237427},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1527387797832489},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.11072978377342224},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C138816342","wikidata":"https://www.wikidata.org/wiki/Q189603","display_name":"Public health","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.3233/shti250281","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti250281","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI250281","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"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":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},{"id":"pmid:40380393","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40380393","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":"Studies in health technology and informatics","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.3233/shti250281","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti250281","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI250281","source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"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":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320873","display_name":"Friedrich-Alexander-Universit\u00e4t Erlangen-N\u00fcrnberg","ror":"https://ror.org/00f7hpc57"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410447817.pdf","grobid_xml":"https://content.openalex.org/works/W4410447817.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2397677514","https://openalex.org/W2914293784","https://openalex.org/W2407382301","https://openalex.org/W1495820741","https://openalex.org/W4323056170","https://openalex.org/W2189429352","https://openalex.org/W4302329558","https://openalex.org/W1971571384"],"abstract_inverted_index":{"Molecular":[0],"tumor":[1,40,165],"boards":[2,41,166],"present":[3],"special":[4],"challenges":[5],"when":[6],"it":[7],"comes":[8],"to":[9,58,62,110,154],"information":[10,136],"collection":[11],"for":[12,73,87,101,163,171],"case":[13,160],"preparation.":[14],"It":[15],"is":[16,55,137],"one":[17],"of":[18,31,66,70,158,176],"the":[19,29,67,102,130,145,156,159,169],"most":[20],"time-consuming":[21],"tasks":[22],"participating":[23],"pathologists":[24],"and":[25,42,76,79,126,167,179],"oncologists":[26],"face,":[27],"limiting":[28],"number":[30],"cases":[32],"that":[33],"can":[34,45],"be":[35],"discussed":[36],"in":[37,43,104,129,144],"these":[38],"specialized":[39],"turn":[44],"profit":[46],"from":[47],"a":[48,56,172],"potential":[49,173],"highly":[50],"personalized":[51],"therapy.":[52],"Digital":[53],"support":[54],"necessity":[57],"enable":[59],"medical":[60],"professionals":[61],"efficiently":[63],"make":[64],"use":[65],"vast":[68],"amount":[69],"data":[71,120],"available":[72,139],"each":[74],"patient":[75,147],"their":[77],"genomic":[78],"clinical":[80],"profile.":[81],"This":[82],"includes":[83],"historically":[84],"recommended":[85],"therapies":[86],"patients":[88],"with":[89,106,117],"molecularly":[90],"similar":[91],"tumors.":[92],"To":[93],"combat":[94],"this":[95],"issue,":[96],"we":[97,152],"developed":[98],"an":[99,141],"extension":[100],"MTB-cBioPortal":[103,146],"collaboration":[105],"clinicians,":[107],"enabling":[108],"users":[109],"access":[111],"previously":[112],"documented":[113],"therapy":[114,177],"recommendations":[115,178],"combined":[116],"corresponding":[118],"follow-up":[119,180],"based":[121],"on":[122],"HL7":[123],"FHIR":[124],"profiles":[125],"modules":[127],"established":[128],"Medical":[131],"Informatics":[132],"Initiative":[133],"(MII).":[134],"The":[135],"made":[138],"through":[140],"additional":[142],"annotation":[143],"view.":[148],"In":[149],"doing":[150],"so":[151],"intend":[153],"improve":[155],"efficiency":[157],"preparation":[161],"process":[162],"molecular":[164],"lay":[168],"groundwork":[170],"multicentric":[174],"exchange":[175],"data.":[181]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
