{"id":"https://openalex.org/W2783814204","doi":"https://doi.org/10.1109/cdc.2017.8264262","title":"Implications of measurement assay type in design of HIV experiments","display_name":"Implications of measurement assay type in design of HIV experiments","publication_year":2017,"publication_date":"2017-12-01","ids":{"openalex":"https://openalex.org/W2783814204","doi":"https://doi.org/10.1109/cdc.2017.8264262","mag":"2783814204","pmid":"https://pubmed.ncbi.nlm.nih.gov/29445252"},"language":"en","primary_location":{"id":"doi:10.1109/cdc.2017.8264262","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cdc.2017.8264262","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE 56th Annual Conference on Decision and Control (CDC)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5065604056","display_name":"LaMont Cannon","orcid":"https://orcid.org/0000-0002-3273-9331"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"LaMont Cannon","raw_affiliation_strings":["University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","University of Delaware Biomedical Engineering Department, Newark, DE, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Biomedical Engineering Department, Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043694061","display_name":"Aditya Jagarapu","orcid":null},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aditya Jagarapu","raw_affiliation_strings":["University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","University of Delaware Biomedical Engineering Department, Newark, DE, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Biomedical Engineering Department, Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053718440","display_name":"Cesar A. Vargas-Garc\u00eda","orcid":"https://orcid.org/0000-0002-4286-8882"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cesar A. Vargas-Garcia","raw_affiliation_strings":["University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","University of Delaware Electrical and Computer Engineering Department Newark, DE, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071195993","display_name":"Michael J. Piovoso","orcid":"https://orcid.org/0000-0002-4879-161X"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael J. Piovoso","raw_affiliation_strings":["University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","University of Delaware Electrical and Computer Engineering Department Newark, DE, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5062050026","display_name":"Ryan Zurakowski","orcid":"https://orcid.org/0000-0003-3726-3114"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ryan Zurakowski","raw_affiliation_strings":["University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","University of Delaware Electrical and Computer Engineering Department Newark, DE, USA"],"affiliations":[{"raw_affiliation_string":"University of Delaware Biomedical Engineering Department, Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE 19716, USA","institution_ids":[]},{"raw_affiliation_string":"University of Delaware Electrical and Computer Engineering Department Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5065604056"],"corresponding_institution_ids":["https://openalex.org/I86501945"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.15682322,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"3","issue":null,"first_page":"4106","last_page":"4111"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9998999834060669,"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":0.9998999834060669,"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/T10526","display_name":"HIV/AIDS drug development and treatment","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10082","display_name":"HIV/AIDS Research and Interventions","score":0.992900013923645,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/digital-polymerase-chain-reaction","display_name":"Digital polymerase chain reaction","score":0.808436393737793},{"id":"https://openalex.org/keywords/polymerase-chain-reaction","display_name":"Polymerase chain reaction","score":0.6242109537124634},{"id":"https://openalex.org/keywords/replication","display_name":"Replication (statistics)","score":0.5839922428131104},{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.5496063828468323},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5182169079780579},{"id":"https://openalex.org/keywords/integrase","display_name":"Integrase","score":0.47048261761665344},{"id":"https://openalex.org/keywords/viral-load","display_name":"Viral load","score":0.45827388763427734},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.42824786901474},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.4219300150871277},{"id":"https://openalex.org/keywords/polymerase","display_name":"Polymerase","score":0.4130396544933319},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.3450404107570648},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.33922648429870605},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23601239919662476},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08831942081451416}],"concepts":[{"id":"https://openalex.org/C48126324","wikidata":"https://www.wikidata.org/wiki/Q5276136","display_name":"Digital polymerase chain reaction","level":4,"score":0.808436393737793},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.6242109537124634},{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.5839922428131104},{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.5496063828468323},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5182169079780579},{"id":"https://openalex.org/C14430832","wikidata":"https://www.wikidata.org/wiki/Q412550","display_name":"Integrase","level":3,"score":0.47048261761665344},{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.45827388763427734},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42824786901474},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.4219300150871277},{"id":"https://openalex.org/C82381507","wikidata":"https://www.wikidata.org/wiki/Q416878","display_name":"Polymerase","level":3,"score":0.4130396544933319},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.3450404107570648},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.33922648429870605},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23601239919662476},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08831942081451416}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/cdc.2017.8264262","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cdc.2017.8264262","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE 56th Annual Conference on Decision and Control (CDC)","raw_type":"proceedings-article"},{"id":"pmid:29445252","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29445252","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":"Proceedings of the ... IEEE Conference on Decision & Control. IEEE Conference on Decision & Control","raw_type":null},{"id":"pmh:oai:europepmc.org:4717693","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5809129","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.8600000143051147,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320332622","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1539694548","https://openalex.org/W1549854676","https://openalex.org/W1553010236","https://openalex.org/W1964380294","https://openalex.org/W1965555277","https://openalex.org/W1971866212","https://openalex.org/W1989254919","https://openalex.org/W2005141763","https://openalex.org/W2020009149","https://openalex.org/W2056833651","https://openalex.org/W2090646713","https://openalex.org/W2106051882","https://openalex.org/W2108967738","https://openalex.org/W2123487311","https://openalex.org/W2127638407","https://openalex.org/W2128446740","https://openalex.org/W2154138428","https://openalex.org/W2160540904","https://openalex.org/W2164273972","https://openalex.org/W2169767468","https://openalex.org/W2484875380","https://openalex.org/W2568514245","https://openalex.org/W2569851255","https://openalex.org/W2774292278","https://openalex.org/W4381415589"],"related_works":["https://openalex.org/W2057222603","https://openalex.org/W2375449733","https://openalex.org/W60134212","https://openalex.org/W2253664354","https://openalex.org/W2385936183","https://openalex.org/W3217030500","https://openalex.org/W2065208435","https://openalex.org/W2048072877","https://openalex.org/W1552359108","https://openalex.org/W2049180693"],"abstract_inverted_index":{"Time":[0],"series":[1],"measurements":[2],"of":[3,12,35,78,104,125,131,140,163,195,204,225],"circular":[4],"viral":[5,133],"episome":[6],"(2-LTR)":[7],"concentrations":[8],"enable":[9],"indirect":[10],"quantification":[11,124,143],"persistent":[13],"low-level":[14],"Human":[15],"Immunodeficiency":[16],"Virus":[17],"(HIV)":[18],"replication":[19],"in":[20,82,180,238],"patients":[21,48],"on":[22],"Integrase-Inhibitor":[23],"intensified":[24],"Combined":[25],"Antiretroviral":[26],"Therapy":[27],"(cART).":[28],"In":[29],"order":[30],"to":[31,43,120,159,208],"determine":[32],"the":[33,59,65,69,76,83,138,169,176,181,185,190,196,201,205,223],"magnitude":[34],"these":[36],"low":[37],"level":[38],"infection":[39],"events,":[40],"blood":[41,66],"has":[42,117],"be":[44,255],"drawn":[45],"from":[46],"a":[47,50,86,100,108,128,155,161,233,241,245],"at":[49,220],"frequency":[51],"and":[52,192,222,248],"volume":[53],"that":[54,230,249],"is":[55,67,72,99,173,232],"strictly":[56],"regulated":[57],"by":[58,74,184,218],"Institutional":[60],"Review":[61],"Board":[62],"(IRB).":[63],"Once":[64],"drawn,":[68],"2-LTR":[70],"concentration":[71],"determined":[73],"quantifying":[75],"amount":[77],"HIV":[79,132],"DNA":[80,142],"present":[81],"sample":[84,165],"via":[85],"PCR":[87],"(Polymerase":[88],"Chain":[89,96,113],"Reaction)":[90],"assay.":[91,260],"Real":[92],"time":[93],"quantitative":[94],"Polymerase":[95,112],"Reaction":[97,114],"(qPCR)":[98],"widely":[101],"used":[102],"method":[103,116],"performing":[105],"PCR;":[106],"however,":[107],"newer":[109],"droplet":[110],"digital":[111],"(ddPCR)":[115],"been":[118],"shown":[119],"provide":[121],"more":[122],"accurate":[123],"DNA.":[126],"Using":[127],"validated":[129],"model":[130,197],"replication,":[134],"this":[135],"paper":[136],"demonstrates":[137],"importance":[139],"considering":[141],"assay":[144,243,247],"type":[145],"when":[146,257],"optimizing":[147],"experiment":[148,251],"design":[149,252],"conditions.":[150],"Experiments":[151],"are":[152],"optimized":[153,206],"using":[154,240,258],"Genetic":[156],"Algorithm":[157],"(GA)":[158],"locate":[160],"family":[162],"suboptimal":[164],"schedules":[166,207,210,216],"which":[167],"yield":[168],"highest":[170],"fitness.":[171],"Fitness":[172],"defined":[174],"as":[175,211,213],"expected":[177],"information":[178,202,237],"gained":[179],"experiment,":[182],"measured":[183],"Kullback-Leibler":[186],"Divergence":[187],"(KLD)":[188],"between":[189],"prior":[191],"posterior":[193],"distributions":[194],"parameters.":[198],"We":[199],"compare":[200],"content":[203],"uniform":[209],"well":[212],"two":[214],"clinical":[215],"implemented":[217],"researchers":[219],"UCSF":[221],"University":[224],"Melbourne.":[226],"This":[227],"work":[228],"shows":[229],"there":[231],"significantly":[234],"greater":[235],"gain":[236],"experiments":[239],"ddPCR":[242],"vs.":[244],"qPCR":[246],"certain":[250],"considerations":[253],"should":[254],"taken":[256],"either":[259]},"counts_by_year":[],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
