{"id":"https://openalex.org/W3113365640","doi":"https://doi.org/10.1109/cibcb48159.2020.9277717","title":"Using Neural Networks to Identify Features Associated with HIV Nef Protein and Cancer","display_name":"Using Neural Networks to Identify Features Associated with HIV Nef Protein and Cancer","publication_year":2020,"publication_date":"2020-10-27","ids":{"openalex":"https://openalex.org/W3113365640","doi":"https://doi.org/10.1109/cibcb48159.2020.9277717","mag":"3113365640"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb48159.2020.9277717","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb48159.2020.9277717","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","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/A5021190624","display_name":"Enoch S. Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210110140","display_name":"Natural Selection (United States)","ror":"https://ror.org/024es8b17","country_code":"US","type":"company","lineage":["https://openalex.org/I4210110140"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Enoch S. Liu","raw_affiliation_strings":["Natural Selection, Inc., San Diego, CA, USA"],"affiliations":[{"raw_affiliation_string":"Natural Selection, Inc., San Diego, CA, USA","institution_ids":["https://openalex.org/I4210110140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014941588","display_name":"Gary B. Fogel","orcid":"https://orcid.org/0000-0003-2848-3043"},"institutions":[{"id":"https://openalex.org/I4210110140","display_name":"Natural Selection (United States)","ror":"https://ror.org/024es8b17","country_code":"US","type":"company","lineage":["https://openalex.org/I4210110140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gary B. Fogel","raw_affiliation_strings":["Natural Selection, Inc., San Diego, CA, USA"],"affiliations":[{"raw_affiliation_string":"Natural Selection, Inc., San Diego, CA, USA","institution_ids":["https://openalex.org/I4210110140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091172210","display_name":"David J. Nolan","orcid":"https://orcid.org/0000-0002-9114-7002"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"David Nolan","raw_affiliation_strings":["BioInfoExperts, Thibodaux, LA, USA"],"affiliations":[{"raw_affiliation_string":"BioInfoExperts, Thibodaux, LA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024152947","display_name":"Susanna L. Lamers","orcid":"https://orcid.org/0000-0002-8163-5571"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Susanna Lamers","raw_affiliation_strings":["BioInfoExperts, Thibodaux, LA, USA"],"affiliations":[{"raw_affiliation_string":"BioInfoExperts, Thibodaux, LA, USA","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077047503","display_name":"Michael S. McGrath","orcid":"https://orcid.org/0000-0002-7232-2602"},"institutions":[{"id":"https://openalex.org/I4210167126","display_name":"UCSF Helen Diller Family Comprehensive Cancer Center","ror":"https://ror.org/05yndxy10","country_code":"US","type":"facility","lineage":["https://openalex.org/I180670191","https://openalex.org/I4210110664","https://openalex.org/I4210167126"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael S. McGrath","raw_affiliation_strings":["UCSF Helen Diller Family, Comprehensive Cancer Center, San Francisco, CA, USA"],"affiliations":[{"raw_affiliation_string":"UCSF Helen Diller Family, Comprehensive Cancer Center, San Francisco, CA, USA","institution_ids":["https://openalex.org/I4210167126"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5021190624"],"corresponding_institution_ids":["https://openalex.org/I4210110140"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.12377589,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"18","issue":null,"first_page":"1","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9998000264167786,"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":0.9998000264167786,"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/T10112","display_name":"HIV Research and Treatment","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.986299991607666,"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/cancer","display_name":"Cancer","score":0.6851676106452942},{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.5852916836738586},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5682525038719177},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5430921316146851},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44143855571746826},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4025249183177948},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3942175805568695},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19373765587806702},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.14327850937843323}],"concepts":[{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.6851676106452942},{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.5852916836738586},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5682525038719177},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5430921316146851},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44143855571746826},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4025249183177948},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3942175805568695},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19373765587806702},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.14327850937843323}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb48159.2020.9277717","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb48159.2020.9277717","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.8199999928474426,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":73,"referenced_works":["https://openalex.org/W65846014","https://openalex.org/W1485268880","https://openalex.org/W1536886974","https://openalex.org/W1542067597","https://openalex.org/W1609600288","https://openalex.org/W1779624089","https://openalex.org/W1963523582","https://openalex.org/W1967281938","https://openalex.org/W1971896762","https://openalex.org/W1975304761","https://openalex.org/W1981316712","https://openalex.org/W1984501109","https://openalex.org/W1984547849","https://openalex.org/W1985204165","https://openalex.org/W1993568862","https://openalex.org/W1993689973","https://openalex.org/W1997870466","https://openalex.org/W2019853549","https://openalex.org/W2023400093","https://openalex.org/W2023919356","https://openalex.org/W2026582002","https://openalex.org/W2029673248","https://openalex.org/W2035866121","https://openalex.org/W2041584824","https://openalex.org/W2041678107","https://openalex.org/W2044573154","https://openalex.org/W2047325215","https://openalex.org/W2048837095","https://openalex.org/W2049695588","https://openalex.org/W2053418558","https://openalex.org/W2056530947","https://openalex.org/W2068997255","https://openalex.org/W2071408631","https://openalex.org/W2075651068","https://openalex.org/W2083522539","https://openalex.org/W2084232810","https://openalex.org/W2088522769","https://openalex.org/W2092962205","https://openalex.org/W2094108392","https://openalex.org/W2112612176","https://openalex.org/W2124934990","https://openalex.org/W2128397296","https://openalex.org/W2128962829","https://openalex.org/W2131322954","https://openalex.org/W2145359802","https://openalex.org/W2156053979","https://openalex.org/W2156289248","https://openalex.org/W2166904916","https://openalex.org/W2171546617","https://openalex.org/W2314111724","https://openalex.org/W2314602528","https://openalex.org/W2336887314","https://openalex.org/W2409726917","https://openalex.org/W2524738915","https://openalex.org/W2600349519","https://openalex.org/W2601913882","https://openalex.org/W2604210225","https://openalex.org/W2715464327","https://openalex.org/W2755319476","https://openalex.org/W2765182121","https://openalex.org/W2895001844","https://openalex.org/W2897071854","https://openalex.org/W2902415855","https://openalex.org/W2904265522","https://openalex.org/W2904847704","https://openalex.org/W3003795760","https://openalex.org/W3041865038","https://openalex.org/W3083139712","https://openalex.org/W4244736178","https://openalex.org/W6602630078","https://openalex.org/W6632243507","https://openalex.org/W6632556893","https://openalex.org/W6682935892"],"related_works":["https://openalex.org/W2186113122","https://openalex.org/W1523310174","https://openalex.org/W2531913951","https://openalex.org/W2391251536","https://openalex.org/W2362198218","https://openalex.org/W4302381976","https://openalex.org/W1982750869","https://openalex.org/W4243634448","https://openalex.org/W2019521278","https://openalex.org/W1984922432"],"abstract_inverted_index":{"HIV":[0,59],"Nef":[1,26,56],"protein":[2,57],"has":[3],"a":[4,21],"known":[5],"association":[6],"with":[7,14,55],"cancer,":[8],"yet":[9],"the":[10,67],"specific":[11],"features":[12,50,70],"associated":[13,54],"this":[15],"relationship":[16],"remain":[17],"poorly":[18],"characterized.":[19],"Using":[20],"dataset":[22],"of":[23],"well":[24],"curated":[25],"sequences,":[27],"we":[28],"trained":[29],"evolved":[30],"neural":[31],"networks":[32],"to":[33,48,63],"classify":[34],"sequences":[35],"as":[36],"having":[37],"originated":[38],"from":[39],"cancer":[40],"or":[41],"non-cancer":[42],"samples.":[43],"This":[44],"process":[45],"allows":[46],"us":[47],"identify":[49],"that":[51],"are":[52],"possibly":[53],"in":[58],"and":[60,69],"its":[61],"relation":[62],"cancer.":[64],"We":[65],"review":[66],"methods":[68],"identified":[71],"for":[72],"their":[73],"biological":[74],"significance.":[75]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}