{"id":"https://openalex.org/W4390992250","doi":"https://doi.org/10.1109/bibm58861.2023.10385339","title":"ImmRegInformer: an interpretable Transformer-based method for prioritizing immune-regulatory cancer drivers","display_name":"ImmRegInformer: an interpretable Transformer-based method for prioritizing immune-regulatory cancer drivers","publication_year":2023,"publication_date":"2023-12-05","ids":{"openalex":"https://openalex.org/W4390992250","doi":"https://doi.org/10.1109/bibm58861.2023.10385339"},"language":"en","primary_location":{"id":"doi:10.1109/bibm58861.2023.10385339","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385339","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077066907","display_name":"Liwen Xu","orcid":"https://orcid.org/0000-0001-7986-5928"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Liwen Xu","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059046043","display_name":"Boya Ji","orcid":"https://orcid.org/0000-0001-8458-1751"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Boya Ji","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102606317","display_name":"Yijun Peng","orcid":null},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yijun Peng","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050384378","display_name":"Wending Pi","orcid":null},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wending Pi","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027286013","display_name":"Xiangxiang Zeng","orcid":"https://orcid.org/0000-0001-6201-0114"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangxiang Zeng","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046408141","display_name":"Peng Zhao","orcid":"https://orcid.org/0000-0003-2361-6521"},"institutions":[{"id":"https://openalex.org/I174104030","display_name":"Taiyuan Normal University","ror":"https://ror.org/051k00p03","country_code":"CN","type":"education","lineage":["https://openalex.org/I174104030"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peng Zhao","raw_affiliation_strings":["Taiyuan Normal University,College of Computer Science and Technology,China","College of Computer Science and Technology, Taiyuan Normal University, China"],"affiliations":[{"raw_affiliation_string":"Taiyuan Normal University,College of Computer Science and Technology,China","institution_ids":["https://openalex.org/I174104030"]},{"raw_affiliation_string":"College of Computer Science and Technology, Taiyuan Normal University, China","institution_ids":["https://openalex.org/I174104030"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108008219","display_name":"Shaoliang Peng","orcid":"https://orcid.org/0000-0002-4647-2615"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shaoliang Peng","raw_affiliation_strings":["Hunan University,College of Computer Science and Electronic Engineering,China","College of Computer Science and Electronic Engineering, Hunan University, China"],"affiliations":[{"raw_affiliation_string":"Hunan University,College of Computer Science and Electronic Engineering,China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, China","institution_ids":["https://openalex.org/I16609230"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5077066907"],"corresponding_institution_ids":["https://openalex.org/I16609230"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.33836878,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"712","last_page":"717"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9986000061035156,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9986000061035156,"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/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10580","display_name":"Immunotherapy and Immune Responses","score":0.9896000027656555,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.6531105041503906},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.588797926902771},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.49979329109191895},{"id":"https://openalex.org/keywords/immunotherapy","display_name":"Immunotherapy","score":0.4688844382762909},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45449912548065186},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.42396754026412964},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3956277668476105},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3714104890823364},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2550353407859802}],"concepts":[{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.6531105041503906},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.588797926902771},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.49979329109191895},{"id":"https://openalex.org/C2777701055","wikidata":"https://www.wikidata.org/wiki/Q1427096","display_name":"Immunotherapy","level":3,"score":0.4688844382762909},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45449912548065186},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.42396754026412964},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3956277668476105},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3714104890823364},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2550353407859802}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm58861.2023.10385339","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385339","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5099999904632568,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W2015963259","https://openalex.org/W2025738474","https://openalex.org/W2028433016","https://openalex.org/W2066671159","https://openalex.org/W2123105952","https://openalex.org/W2138039462","https://openalex.org/W2779221466","https://openalex.org/W2790362775","https://openalex.org/W2796408191","https://openalex.org/W2804812017","https://openalex.org/W2894573839","https://openalex.org/W2957861560","https://openalex.org/W2965035617","https://openalex.org/W2997931311","https://openalex.org/W3000339487","https://openalex.org/W3003320500","https://openalex.org/W3012039087","https://openalex.org/W3015312119","https://openalex.org/W3029490475","https://openalex.org/W3088246260","https://openalex.org/W3137406939","https://openalex.org/W3146935595","https://openalex.org/W3201390648","https://openalex.org/W3203575974","https://openalex.org/W4379471622"],"related_works":["https://openalex.org/W2357948923","https://openalex.org/W4313472242","https://openalex.org/W2332159055","https://openalex.org/W2030500189","https://openalex.org/W2419188526","https://openalex.org/W2144422987","https://openalex.org/W2018938924","https://openalex.org/W3171722058","https://openalex.org/W1972945471","https://openalex.org/W1962658633"],"abstract_inverted_index":{"The":[0],"identification":[1],"and":[2,39,48,103,119,167],"prioritization":[3],"of":[4,16,99,116,139,154],"immune-regulatory":[5],"cancer":[6,17,36,155],"driver":[7,37,73,88,125],"mutations":[8,38,74,89,126],"present":[9],"a":[10,25,158],"promising":[11],"study":[12,135],"for":[13],"precision":[14],"immunotherapy":[15],"but":[18],"remain":[19],"considerable":[20],"challenges.":[21],"Here":[22],"we":[23,84,111],"introduced":[24],"novel":[26],"method":[27,56],"ImmRegInformer":[28,171],"to":[29,66,146],"systematically":[30],"explore":[31],"the":[32,44,49,58,63,68,77,100,106,113,124,137,151,163],"regulatory":[33,165],"relationship":[34],"between":[35,71],"immune":[40,78,164],"response":[41],"by":[42],"leveraging":[43],"powerful":[45],"Transformer":[46,145],"model":[47],"lasso-regularised":[50],"ordinal":[51],"regression.":[52],"In":[53,132],"particular,":[54],"our":[55],"integrated":[57],"mutation":[59,101,120],"co-occurrence":[60,121],"information":[61],"with":[62,105,130],"self-attention":[64,117],"weight":[65,118],"discern":[67],"underlying":[69],"relationships":[70],"different":[72],"when":[75],"regulating":[76],"cytolytic":[79,107],"activity":[80],"(CYT).":[81],"Using":[82],"ImmRegInformer,":[83],"identified":[85],"250":[86],"immune-regulating":[87],"in":[90,97,122,161],"8223":[91],"pan-cancer":[92],"samples.":[93],"They":[94],"were":[95],"verified":[96],"terms":[98],"frequency":[102],"interactions":[104],"signature":[108],"genes.":[109],"Further,":[110],"found":[112],"complementary":[114],"roles":[115],"prioritizing":[123],"exhibited":[127],"dominant":[128],"associations":[129],"CYT.":[131],"conclusion,":[133],"this":[134],"underscored":[136],"importance":[138],"employing":[140],"deep":[141],"learning":[142],"methods":[143],"like":[144],"unlock":[147],"hidden":[148],"insights":[149],"into":[150],"biological":[152],"complexities":[153],"immunity,":[156],"offering":[157],"new":[159],"avenue":[160],"dissecting":[162],"mechanism":[166],"potential":[168],"clinical":[169],"applications.":[170],"is":[172],"freely":[173],"available":[174],"at":[175],"https://github.com/Liwen-Liberty/ImmregInformer.":[176]},"counts_by_year":[],"updated_date":"2025-12-25T23:11:45.687758","created_date":"2025-10-10T00:00:00"}
