{"id":"https://openalex.org/W4406260018","doi":"https://doi.org/10.1109/bibm62325.2024.10822383","title":"FEATURE-pHLA: Physico-chemical features efficiently predict peptide-HLA binding affinity","display_name":"FEATURE-pHLA: Physico-chemical features efficiently predict peptide-HLA binding affinity","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406260018","doi":"https://doi.org/10.1109/bibm62325.2024.10822383"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822383","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822383","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5090738678","display_name":"Hamda Alhosani","orcid":null},"institutions":[{"id":"https://openalex.org/I4210087059","display_name":"Technology Innovation Institute","ror":"https://ror.org/001kv2y39","country_code":"AE","type":"facility","lineage":["https://openalex.org/I4210087059"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Hamda Alhosani","raw_affiliation_strings":["Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates","institution_ids":["https://openalex.org/I4210087059"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055826525","display_name":"Raghvendra Mall","orcid":"https://orcid.org/0000-0003-1779-3150"},"institutions":[{"id":"https://openalex.org/I4210087059","display_name":"Technology Innovation Institute","ror":"https://ror.org/001kv2y39","country_code":"AE","type":"facility","lineage":["https://openalex.org/I4210087059"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Raghvendra Mall","raw_affiliation_strings":["Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates","institution_ids":["https://openalex.org/I4210087059"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101731345","display_name":"Ankita Singh","orcid":"https://orcid.org/0000-0001-8339-3337"},"institutions":[{"id":"https://openalex.org/I4210087059","display_name":"Technology Innovation Institute","ror":"https://ror.org/001kv2y39","country_code":"AE","type":"facility","lineage":["https://openalex.org/I4210087059"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Ankita Singh","raw_affiliation_strings":["Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates","institution_ids":["https://openalex.org/I4210087059"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010454141","display_name":"Filippo Castiglione","orcid":"https://orcid.org/0000-0002-1442-3552"},"institutions":[{"id":"https://openalex.org/I4210087059","display_name":"Technology Innovation Institute","ror":"https://ror.org/001kv2y39","country_code":"AE","type":"facility","lineage":["https://openalex.org/I4210087059"]}],"countries":["AE"],"is_corresponding":false,"raw_author_name":"Filippo Castiglione","raw_affiliation_strings":["Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Technology Innovation Institute,Biotechnology Research Center,Abu Dhabi,United Arab Emirates","institution_ids":["https://openalex.org/I4210087059"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I4210087059"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"4","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9990000128746033,"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":0.9990000128746033,"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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.9973999857902527,"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"}},{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9940000176429749,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.5416467785835266},{"id":"https://openalex.org/keywords/peptide","display_name":"Peptide","score":0.48370081186294556},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.48171883821487427},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.44687068462371826},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4283123314380646},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.344817578792572},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.22419357299804688},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.12307822704315186},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11889955401420593},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.10058245062828064}],"concepts":[{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.5416467785835266},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.48370081186294556},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.48171883821487427},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.44687068462371826},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4283123314380646},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.344817578792572},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.22419357299804688},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.12307822704315186},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11889955401420593},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.10058245062828064},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822383","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822383","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.4399999976158142,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W8854653","https://openalex.org/W1549641435","https://openalex.org/W1990395260","https://openalex.org/W1994048581","https://openalex.org/W2019711015","https://openalex.org/W2028132901","https://openalex.org/W2064576005","https://openalex.org/W2110574412","https://openalex.org/W2110694683","https://openalex.org/W2117057887","https://openalex.org/W2117645719","https://openalex.org/W2127910834","https://openalex.org/W2141634782","https://openalex.org/W2144166466","https://openalex.org/W2148512505","https://openalex.org/W2150286046","https://openalex.org/W2154509769","https://openalex.org/W2159404298","https://openalex.org/W2271914738","https://openalex.org/W2615065404","https://openalex.org/W2742753876","https://openalex.org/W2750228412","https://openalex.org/W2898389621","https://openalex.org/W2941612414","https://openalex.org/W2995494055","https://openalex.org/W3013382035","https://openalex.org/W3018554363","https://openalex.org/W3024570138","https://openalex.org/W3042910002","https://openalex.org/W3082455399","https://openalex.org/W3093681468","https://openalex.org/W3122375914","https://openalex.org/W3168997536","https://openalex.org/W3198814330","https://openalex.org/W4220655797","https://openalex.org/W4285012884","https://openalex.org/W4308637256","https://openalex.org/W4385245566","https://openalex.org/W4389264374","https://openalex.org/W4390917186","https://openalex.org/W4391042215","https://openalex.org/W4397289366","https://openalex.org/W6664976405","https://openalex.org/W6745609711","https://openalex.org/W6749500503","https://openalex.org/W6750729320","https://openalex.org/W6768977447","https://openalex.org/W6855935380","https://openalex.org/W6869321062"],"related_works":["https://openalex.org/W4387497383","https://openalex.org/W2948807893","https://openalex.org/W2899084033","https://openalex.org/W2778153218","https://openalex.org/W2748952813","https://openalex.org/W1531601525","https://openalex.org/W4391375266","https://openalex.org/W2078814861","https://openalex.org/W2527526854","https://openalex.org/W1976181487"],"abstract_inverted_index":{"Human":[0],"leukocyte":[1],"antigen":[2],"or":[3],"HLA":[4,93],"plays":[5],"a":[6,71],"crucial":[7],"role":[8],"in":[9,44,51],"the":[10,86,103,111,129,134,141,158,164,171],"recognition":[11],"of":[12,30,106,113,137,144,160,166],"antigenic":[13],"peptides":[14,91],"as":[15],"this":[16],"binding":[17,32,115],"is":[18,34,96],"responsible":[19],"for":[20,36,110,163],"subsequent":[21],"immune":[22],"response":[23],"by":[24],"eliciting":[25],"T-cell":[26],"activation.":[27],"Accurate":[28],"prediction":[29],"peptide-HLA":[31,53,114,126],"affinity":[33],"imperative":[35],"facilitating":[37],"vaccine":[38,131],"development":[39],"and":[40,47,66,73,92,95,140,169],"immunotherapies.":[41],"Recent":[42],"advancements":[43],"transformer-based":[45],"models":[46,50],"protein":[48],"language":[49],"predicting":[52],"interactions":[54,168],"have":[55],"shown":[56],"significant":[57],"improvements.":[58],"Current":[59],"methodologies":[60],"rely":[61],"on":[62,123,152],"deep":[63],"learning":[64],"methods":[65,122],"GPU-intensive":[67],"computations.":[68],"We":[69],"propose":[70],"simple":[72],"computationally":[74],"cheaper":[75],"method":[76,119],"that":[77],"demonstrates":[78],"efficacy.":[79],"Our":[80,117,155],"tree-based":[81],"model,":[82],"named":[83],"FEATUREPHLA,":[84],"utilizes":[85],"physico-chemical":[87,108],"fingerprints":[88],"obtained":[89],"from":[90,128],"sequences":[94],"highly":[97],"interpretable.Our":[98],"goal":[99],"was":[100],"to":[101],"estimate":[102],"predictive":[104,150,178],"efficacy":[105],"these":[107],"features":[109,162],"task":[112],"prediction.":[116],"proposed":[118],"outperforms":[120],"other":[121],"experimentally":[124],"verified":[125],"binders":[127],"HPV":[130],"data":[132],"securing":[133],"highest":[135],"number":[136,143],"true":[138],"positives":[139],"lowest":[142],"false":[145],"negatives,":[146],"thereby,":[147],"showcasing":[148],"its":[149],"power":[151],"real-world":[153],"scenarios.":[154],"study":[156],"reveals":[157],"relevance":[159],"biology-inspired":[161],"calculation":[165],"molecular":[167],"lays":[170],"groundwork":[172],"towards":[173],"developing":[174],"more":[175],"accurate":[176],"biology-informed":[177],"models.":[179]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}