{"id":"https://openalex.org/W4281677275","doi":"https://doi.org/10.3233/shti220071","title":"POKR: Building a Computable Heterogeneous Knowledge Resource for Precision Oncology","display_name":"POKR: Building a Computable Heterogeneous Knowledge Resource for Precision Oncology","publication_year":2022,"publication_date":"2022-06-06","ids":{"openalex":"https://openalex.org/W4281677275","doi":"https://doi.org/10.3233/shti220071","pmid":"https://pubmed.ncbi.nlm.nih.gov/35673010"},"language":"en","primary_location":{"id":"doi:10.3233/shti220071","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti220071","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI220071","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":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI220071","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071042711","display_name":"Yanbo Guo","orcid":"https://orcid.org/0009-0002-5074-0149"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]},{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yanbo Guo","raw_affiliation_strings":["Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA","Department of Computer Science and Engineering, University at Buffalo, Buffalo, NY, USA"],"affiliations":[{"raw_affiliation_string":"Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I4210146710"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University at Buffalo, Buffalo, NY, USA","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100337669","display_name":"Chen Wang","orcid":"https://orcid.org/0000-0003-2638-3081"},"institutions":[{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chen Wang","raw_affiliation_strings":["Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I4210146710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004159840","display_name":"Raymond M. Moore","orcid":"https://orcid.org/0000-0003-4196-1804"},"institutions":[{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Raymond Moore","raw_affiliation_strings":["Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I4210146710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101585391","display_name":"Hongfang Liu","orcid":"https://orcid.org/0000-0003-2570-3741"},"institutions":[{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hongfang Liu","raw_affiliation_strings":["Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I4210146710"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087033178","display_name":"Feichen Shen","orcid":"https://orcid.org/0000-0002-7803-2331"},"institutions":[{"id":"https://openalex.org/I4210146710","display_name":"Mayo Clinic in Florida","ror":"https://ror.org/03zzw1w08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1330342723","https://openalex.org/I4210146710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Feichen Shen","raw_affiliation_strings":["Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA"],"affiliations":[{"raw_affiliation_string":"Department of Artificial Intelligence & Informatics, Mayo Clinic, Rochester, MN, USA","institution_ids":["https://openalex.org/I4210146710"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5071042711"],"corresponding_institution_ids":["https://openalex.org/I4210146710","https://openalex.org/I63190737"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.15463918,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"290","issue":null,"first_page":"243","last_page":"247"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9909999966621399,"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":0.9909999966621399,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9842000007629395,"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":0.9801999926567078,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.6121119856834412},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.607860267162323},{"id":"https://openalex.org/keywords/repurposing","display_name":"Repurposing","score":0.6022455096244812},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.575744092464447},{"id":"https://openalex.org/keywords/precision-oncology","display_name":"Precision oncology","score":0.5253124833106995},{"id":"https://openalex.org/keywords/drug-repositioning","display_name":"Drug repositioning","score":0.4685198962688446},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4256453514099121},{"id":"https://openalex.org/keywords/precision-medicine","display_name":"Precision medicine","score":0.4017946124076843},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3803504705429077},{"id":"https://openalex.org/keywords/knowledge-management","display_name":"Knowledge management","score":0.34742164611816406},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3471122980117798},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.21226009726524353},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1772509217262268},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11094585061073303},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.08655858039855957},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.08552095293998718}],"concepts":[{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.6121119856834412},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.607860267162323},{"id":"https://openalex.org/C519536355","wikidata":"https://www.wikidata.org/wiki/Q21021151","display_name":"Repurposing","level":2,"score":0.6022455096244812},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.575744092464447},{"id":"https://openalex.org/C3020497934","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision oncology","level":3,"score":0.5253124833106995},{"id":"https://openalex.org/C103637391","wikidata":"https://www.wikidata.org/wiki/Q5308921","display_name":"Drug repositioning","level":3,"score":0.4685198962688446},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4256453514099121},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.4017946124076843},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3803504705429077},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.34742164611816406},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3471122980117798},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.21226009726524353},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1772509217262268},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11094585061073303},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.08655858039855957},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.08552095293998718},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.0},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008495","descriptor_name":"Medical Oncology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008495","descriptor_name":"Medical Oncology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008495","descriptor_name":"Medical Oncology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","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":"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":"D010865","descriptor_name":"Pilot Projects","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010865","descriptor_name":"Pilot Projects","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010865","descriptor_name":"Pilot Projects","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.3233/shti220071","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti220071","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI220071","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:35673010","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35673010","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":null}],"best_oa_location":{"id":"doi:10.3233/shti220071","is_oa":true,"landing_page_url":"https://doi.org/10.3233/shti220071","pdf_url":"https://ebooks.iospress.nl/pdf/doi/10.3233/SHTI220071","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/F4320313433","display_name":"Gerstner Family Foundation","ror":null},{"id":"https://openalex.org/F4320332193","display_name":"Genentech","ror":"https://ror.org/04gndp242"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4281677275.pdf","grobid_xml":"https://content.openalex.org/works/W4281677275.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W38296636","https://openalex.org/W2013337602","https://openalex.org/W2103868202","https://openalex.org/W2146211839","https://openalex.org/W2171756499","https://openalex.org/W2187089797","https://openalex.org/W2516242315","https://openalex.org/W2614443510","https://openalex.org/W2767612092","https://openalex.org/W2904022159","https://openalex.org/W2946317931","https://openalex.org/W2962883142","https://openalex.org/W2974931517","https://openalex.org/W3011643984","https://openalex.org/W3026268073","https://openalex.org/W4297571622","https://openalex.org/W4399167527","https://openalex.org/W6738337739"],"related_works":["https://openalex.org/W4212896943","https://openalex.org/W3188043137","https://openalex.org/W2941187122","https://openalex.org/W3042885244","https://openalex.org/W2783076969","https://openalex.org/W4385302066","https://openalex.org/W3180704300","https://openalex.org/W4313525544","https://openalex.org/W4281611078","https://openalex.org/W2297410961"],"abstract_inverted_index":{"Precision":[0],"oncology":[1,76,104],"is":[2],"expected":[3],"to":[4,11,82,115],"improve":[5,16],"selection":[6],"of":[7,42],"targeted":[8],"therapies,":[9],"tailored":[10],"individual":[12],"patients":[13],"and":[14,34,40,111,124,135,149],"ultimately":[15],"cancer":[17,21],"patients'":[18],"outcomes.":[19],"Several":[20],"genetics":[22],"knowledge":[23,53,61,77,105,122],"databases":[24],"have":[25],"been":[26],"successfully":[27],"developed":[28],"for":[29,72,92],"such":[30],"purposes,":[31],"including":[32],"CIViC":[33,110],"OncoKB,":[35,112],"with":[36,79],"active":[37],"community-based":[38],"curations":[39],"scoring":[41],"genetic-treatment":[43],"evidences.":[44],"Although":[45],"many":[46],"studies":[47],"were":[48],"conducted":[49],"based":[50],"on":[51],"each":[52,121],"base":[54,123],"respectively,":[55],"the":[56,143,157],"integrative":[57],"analysis":[58],"across":[59],"both":[60],"bases":[62],"remains":[63],"largely":[64],"unexplored.":[65],"Thus,":[66],"there":[67],"exists":[68],"an":[69],"urgent":[70],"need":[71],"a":[73,88,101],"heterogeneous":[74,102],"precision":[75,103],"resource":[78,106],"computational":[80],"power":[81],"support":[83],"drug":[84],"repurposing":[85],"discovery":[86],"in":[87,113,120],"timely":[89],"manner,":[90],"especially":[91],"life-threatening":[93],"cancer.":[94],"In":[95],"this":[96],"pilot":[97],"study,":[98],"we":[99],"built":[100],"(POKR)":[107],"by":[108],"integrating":[109],"order":[114],"incorporate":[116],"unique":[117],"information":[118],"contained":[119],"make":[125],"associations":[126],"amongst":[127],"biomedical":[128],"entities":[129],"(e.g.,":[130],"gene,":[131],"drug,":[132],"disease)":[133],"computable":[134],"measurable":[136],"via":[137],"training":[138],"POKR":[139,151],"graph":[140],"embeddings.":[141],"All":[142],"relevant":[144],"codes,":[145],"database":[146],"dump":[147],"files,":[148],"pre-trained":[150],"embeddings":[152],"can":[153],"be":[154],"accessed":[155],"through":[156],"following":[158],"URL:":[159],"https://github.com/shenfc/POKR.":[160]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
