{"id":"https://openalex.org/W2021237109","doi":"https://doi.org/10.1109/iccabs.2012.6182677","title":"Workshop: Error correction, noise filtering, and phylogenetic analysis of HIV sequences using the 454 platform","display_name":"Workshop: Error correction, noise filtering, and phylogenetic analysis of HIV sequences using the 454 platform","publication_year":2012,"publication_date":"2012-02-01","ids":{"openalex":"https://openalex.org/W2021237109","doi":"https://doi.org/10.1109/iccabs.2012.6182677","mag":"2021237109"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2012.6182677","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182677","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","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/A5036553087","display_name":"Klaus Scheffler","orcid":"https://orcid.org/0000-0001-6316-8773"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Konrad Scheffler","raw_affiliation_strings":["Department of Medicine, University of California, San Diego, USA","Department of Medicine, University of California, San Diego, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA#TAB#","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063261412","display_name":"N. Lance Hepler","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"N Lance Hepler","raw_affiliation_strings":["Department of Medicine, University of California, San Diego, USA","Department of Medicine, University of California, San Diego, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA#TAB#","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102967106","display_name":"Martin Smith","orcid":"https://orcid.org/0000-0003-3470-7576"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Martin D Smith","raw_affiliation_strings":["Department of Medicine, University of California, San Diego, USA","Department of Medicine, University of California, San Diego, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA#TAB#","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046640566","display_name":"Wayne Delport","orcid":null},"institutions":[{"id":"https://openalex.org/I4210125408","display_name":"Prognosys Biosciences (United States)","ror":"https://ror.org/02y2p9e58","country_code":"US","type":"company","lineage":["https://openalex.org/I4210125408"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wayne Delport","raw_affiliation_strings":["Prognosys Biosciences, La Jolla, CA, USA"],"affiliations":[{"raw_affiliation_string":"Prognosys Biosciences, La Jolla, CA, USA","institution_ids":["https://openalex.org/I4210125408"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004110504","display_name":"Art F. Y. Poon","orcid":"https://orcid.org/0000-0003-3779-154X"},"institutions":[{"id":"https://openalex.org/I4210131951","display_name":"AIDS Vancouver","ror":"https://ror.org/02mgny734","country_code":"CA","type":"nonprofit","lineage":["https://openalex.org/I4210131951"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Art FY Poon","raw_affiliation_strings":["BC Centre for Excellence in HIV/AIDS, Vancouver, BC, Canada","BC Centre for Excellence in HIV/AIDS  Vancouver British Columbia Canada"],"affiliations":[{"raw_affiliation_string":"BC Centre for Excellence in HIV/AIDS, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I4210131951"]},{"raw_affiliation_string":"BC Centre for Excellence in HIV/AIDS  Vancouver British Columbia Canada","institution_ids":["https://openalex.org/I4210131951"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075502820","display_name":"Douglas Richman","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Douglas Richman","raw_affiliation_strings":["Department of Medicine, University of California, San Diego, USA","Department of Medicine, University of California, San Diego, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA#TAB#","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011410563","display_name":"Sergei L. Kosakovsky Pond","orcid":"https://orcid.org/0000-0003-4817-4029"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sergei L Kosakovsky Pond","raw_affiliation_strings":["Department of Medicine, University of California, San Diego, USA","Department of Medicine, University of California, San Diego, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Medicine, University of California, San Diego, USA#TAB#","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5036553087"],"corresponding_institution_ids":["https://openalex.org/I36258959"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.09954254,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9865000247955322,"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"}},"topics":[{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9865000247955322,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9851999878883362,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.939300000667572,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5434520244598389},{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.534641683101654},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.5307700037956238},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.5209768414497375},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5109283328056335},{"id":"https://openalex.org/keywords/noise","display_name":"Noise (video)","score":0.49817728996276855},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.48241814970970154},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.46812617778778076},{"id":"https://openalex.org/keywords/coding-region","display_name":"Coding region","score":0.45137423276901245},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.45073947310447693},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.35571393370628357},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33039480447769165},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.31601110100746155},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.20509836077690125},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.16323506832122803},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14668643474578857},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.14281368255615234},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.12196782231330872},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12004104256629944}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5434520244598389},{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.534641683101654},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5307700037956238},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.5209768414497375},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5109283328056335},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.49817728996276855},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.48241814970970154},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.46812617778778076},{"id":"https://openalex.org/C91779695","wikidata":"https://www.wikidata.org/wiki/Q3780824","display_name":"Coding region","level":3,"score":0.45137423276901245},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.45073947310447693},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.35571393370628357},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33039480447769165},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.31601110100746155},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.20509836077690125},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.16323506832122803},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14668643474578857},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.14281368255615234},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.12196782231330872},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12004104256629944},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/iccabs.2012.6182677","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182677","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","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":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W3132115146","https://openalex.org/W1969673184","https://openalex.org/W2947266077","https://openalex.org/W2619166255","https://openalex.org/W1539994441","https://openalex.org/W2472738690","https://openalex.org/W3011303654","https://openalex.org/W2359210733","https://openalex.org/W1970342753","https://openalex.org/W3089600567"],"abstract_inverted_index":{"The":[0],"454":[1],"sequencing":[2,19,55],"platform":[3],"enables":[4],"new":[5],"investigatory":[6],"methods":[7],"for":[8,59],"characterizing":[9],"the":[10,53,60],"diversity":[11],"of":[12,35,62],"a":[13],"population,":[14],"but":[15],"is":[16],"prone":[17],"to":[18,29,45],"errors":[20,32,56],"such":[21,47],"as":[22],"homopolymer":[23],"length":[24],"miscalls":[25],"which":[26],"can":[27],"lead":[28],"frame":[30,48],"shift":[31,49],"in":[33,66,74],"analyses":[34],"protein":[36],"coding":[37],"sequences.":[38],"We":[39],"present":[40],"an":[41],"analysis":[42],"methodology":[43],"intended":[44],"correct":[46],"errors,":[50],"distinguish":[51],"between":[52],"remaining":[54],"and":[57,70],"noise":[58],"purpose":[61],"detecting":[63],"minority":[64],"variants":[65],"intra-patient":[67],"HIV":[68,75],"populations,":[69],"detect":[71],"dual":[72],"infections":[73],"positive":[76],"patients.":[77]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
