{"id":"https://openalex.org/W4400497278","doi":"https://doi.org/10.3389/fbinf.2024.1400003","title":"AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters","display_name":"AUTO-TUNE: selecting the distance threshold for inferring HIV transmission clusters","publication_year":2024,"publication_date":"2024-07-10","ids":{"openalex":"https://openalex.org/W4400497278","doi":"https://doi.org/10.3389/fbinf.2024.1400003","pmid":"https://pubmed.ncbi.nlm.nih.gov/39086842"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2024.1400003","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1400003","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2024.1400003/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2024.1400003/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058260003","display_name":"Steven Weaver","orcid":"https://orcid.org/0000-0002-6931-7191"},"institutions":[{"id":"https://openalex.org/I84392919","display_name":"Temple University","ror":"https://ror.org/00kx1jb78","country_code":"US","type":"education","lineage":["https://openalex.org/I84392919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven Weaver","raw_affiliation_strings":["Center for Viral Evolution, Temple University, Philadelphia, PA, United States"],"affiliations":[{"raw_affiliation_string":"Center for Viral Evolution, Temple University, Philadelphia, PA, United States","institution_ids":["https://openalex.org/I84392919"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100500277","display_name":"Vanessa M. D\u00e1vila Conn","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Vanessa M. D\u00e1vila Conn","raw_affiliation_strings":["Center for Research in Infectious Diseases, National Institute of Respiratory Diseases, Mexico City, Mexico"],"affiliations":[{"raw_affiliation_string":"Center for Research in Infectious Diseases, National Institute of Respiratory Diseases, Mexico City, Mexico","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109691558","display_name":"Daniel Ji","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":"Daniel Ji","raw_affiliation_strings":["Department of Medicine, University of California San Diego, La Jolla, CA, United States"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, La Jolla, CA, United States","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5098768940","display_name":"Hannah Verdonk","orcid":null},"institutions":[{"id":"https://openalex.org/I84392919","display_name":"Temple University","ror":"https://ror.org/00kx1jb78","country_code":"US","type":"education","lineage":["https://openalex.org/I84392919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hannah Verdonk","raw_affiliation_strings":["Center for Viral Evolution, Temple University, Philadelphia, PA, United States"],"affiliations":[{"raw_affiliation_string":"Center for Viral Evolution, Temple University, Philadelphia, PA, United States","institution_ids":["https://openalex.org/I84392919"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086496217","display_name":"Santiago \u00c1vila\u2010R\u00edos","orcid":"https://orcid.org/0000-0003-3371-4248"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Santiago \u00c1vila-R\u00edos","raw_affiliation_strings":["National Institute of Respiratory Diseases, Mexico City, Mexico"],"affiliations":[{"raw_affiliation_string":"National Institute of Respiratory Diseases, Mexico City, Mexico","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101975805","display_name":"Andrew Brown","orcid":"https://orcid.org/0000-0002-5700-3128"},"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":"Andrew J. Leigh Brown","raw_affiliation_strings":["Department of Medicine, University of California San Diego, La Jolla, CA, United States"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, La Jolla, CA, United States","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069232831","display_name":"Joel O. Wertheim","orcid":"https://orcid.org/0000-0003-4882-5856"},"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":"Joel O. Wertheim","raw_affiliation_strings":["Department of Medicine, University of California San Diego, La Jolla, CA, United States"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, La Jolla, CA, United States","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/I84392919","display_name":"Temple University","ror":"https://ror.org/00kx1jb78","country_code":"US","type":"education","lineage":["https://openalex.org/I84392919"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sergei L. Kosakovsky Pond","raw_affiliation_strings":["Center for Viral Evolution, Temple University, Philadelphia, PA, United States"],"affiliations":[{"raw_affiliation_string":"Center for Viral Evolution, Temple University, Philadelphia, PA, United States","institution_ids":["https://openalex.org/I84392919"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5011410563"],"corresponding_institution_ids":["https://openalex.org/I84392919"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":1.4784,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.82784983,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"4","issue":null,"first_page":"1400003","last_page":"1400003"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11819","display_name":"Data-Driven Disease Surveillance","score":0.9936000108718872,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T11819","display_name":"Data-Driven Disease Surveillance","score":0.9936000108718872,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"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/T10064","display_name":"Complex Network Analysis Techniques","score":0.9718999862670898,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11644","display_name":"Spam and Phishing Detection","score":0.9700999855995178,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.6237034797668457},{"id":"https://openalex.org/keywords/transmission","display_name":"Transmission (telecommunications)","score":0.6223459243774414},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.38226574659347534},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22011184692382812},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.2091117799282074},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.2054903209209442}],"concepts":[{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.6237034797668457},{"id":"https://openalex.org/C761482","wikidata":"https://www.wikidata.org/wiki/Q118093","display_name":"Transmission (telecommunications)","level":2,"score":0.6223459243774414},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.38226574659347534},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22011184692382812},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.2091117799282074},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.2054903209209442}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3389/fbinf.2024.1400003","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1400003","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2024.1400003/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39086842","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39086842","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt1nh876bz","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/1nh876bz","pdf_url":"https://escholarship.org/content/qt1nh876bz/qt1nh876bz.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11289888","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11289888","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11289888/pdf/fbinf-04-1400003.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Front Bioinform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:4224de6e5bd44b569093ce7fd9f1f999","is_oa":true,"landing_page_url":"https://doaj.org/article/4224de6e5bd44b569093ce7fd9f1f999","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Bioinformatics, Vol 4 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2024.1400003","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1400003","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2024.1400003/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.8700000047683716}],"awards":[{"id":"https://openalex.org/G1458492301","display_name":null,"funder_award_id":"GM144468","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G291217246","display_name":null,"funder_award_id":"AI135992","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5738514294","display_name":null,"funder_award_id":"AI140970","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7272220648","display_name":null,"funder_award_id":"GM110749","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8174972698","display_name":null,"funder_award_id":"AI134384","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4400497278.pdf","grobid_xml":"https://content.openalex.org/works/W4400497278.grobid-xml"},"referenced_works_count":86,"referenced_works":["https://openalex.org/W83741187","https://openalex.org/W1943089283","https://openalex.org/W1997497517","https://openalex.org/W2001657177","https://openalex.org/W2033993279","https://openalex.org/W2044881936","https://openalex.org/W2060919531","https://openalex.org/W2061504941","https://openalex.org/W2070519435","https://openalex.org/W2087120817","https://openalex.org/W2119284380","https://openalex.org/W2139656371","https://openalex.org/W2144775551","https://openalex.org/W2149053924","https://openalex.org/W2149445861","https://openalex.org/W2149758081","https://openalex.org/W2166009925","https://openalex.org/W2245950038","https://openalex.org/W2424555017","https://openalex.org/W2494835558","https://openalex.org/W2556659231","https://openalex.org/W2598532836","https://openalex.org/W2605599004","https://openalex.org/W2741280238","https://openalex.org/W2757222109","https://openalex.org/W2761231002","https://openalex.org/W2764031498","https://openalex.org/W2781938185","https://openalex.org/W2792776761","https://openalex.org/W2793085614","https://openalex.org/W2799773334","https://openalex.org/W2805384910","https://openalex.org/W2820666882","https://openalex.org/W2891129221","https://openalex.org/W2894393582","https://openalex.org/W2898836325","https://openalex.org/W2899625809","https://openalex.org/W2903803722","https://openalex.org/W2921019834","https://openalex.org/W2924336019","https://openalex.org/W2945275268","https://openalex.org/W2947194689","https://openalex.org/W2971483968","https://openalex.org/W2975132795","https://openalex.org/W2981017352","https://openalex.org/W3011246689","https://openalex.org/W3011485478","https://openalex.org/W3013140731","https://openalex.org/W3013210588","https://openalex.org/W3023361341","https://openalex.org/W3044022174","https://openalex.org/W3044263553","https://openalex.org/W3048478224","https://openalex.org/W3081602681","https://openalex.org/W3088118846","https://openalex.org/W3095611768","https://openalex.org/W3103816374","https://openalex.org/W3113784193","https://openalex.org/W3122428796","https://openalex.org/W3123588158","https://openalex.org/W3126219719","https://openalex.org/W3135214009","https://openalex.org/W3158699104","https://openalex.org/W3192551162","https://openalex.org/W3195614140","https://openalex.org/W3196433891","https://openalex.org/W3203461015","https://openalex.org/W3207123355","https://openalex.org/W3212329743","https://openalex.org/W4200312845","https://openalex.org/W4200567888","https://openalex.org/W4206526242","https://openalex.org/W4206922714","https://openalex.org/W4214879616","https://openalex.org/W4280585866","https://openalex.org/W4283023181","https://openalex.org/W4292183088","https://openalex.org/W4296251708","https://openalex.org/W4321004182","https://openalex.org/W4362466292","https://openalex.org/W4366742376","https://openalex.org/W4383877602","https://openalex.org/W4386953567","https://openalex.org/W4390046868","https://openalex.org/W6603413352","https://openalex.org/W6769178183"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W2382290278","https://openalex.org/W4395014643"],"abstract_inverted_index":{"Molecular":[0],"surveillance":[1],"of":[2,7,47,97,113,137,163,170,173,184,210,274,334],"viral":[3],"pathogens":[4],"and":[5,176,206],"inference":[6],"transmission":[8,38,307],"networks":[9],"from":[10,281],"genomic":[11],"data":[12],"play":[13],"an":[14],"increasingly":[15],"important":[16],"role":[17],"in":[18,36,60,82,122,187,263,294,299],"public":[19,98,347],"health":[20,99,348],"efforts,":[21],"especially":[22],"for":[23,116,151,246,308,340],"HIV-1.":[24],"For":[25,233],"many":[26,64,123,309],"methods,":[27],"the":[28,37,45,104,110,134,138,161,168,171,174,177,182,188,208,212,252,279,289],"genetic":[29],"distance":[30,52,74,154,216,242,316],"threshold":[31,53,75,112,129,155,217,243,273,317],"used":[32],"to":[33,70,131,159,195,218,231,268,276,286,320],"connect":[34],"sequences":[35],"network":[39,62,84],"is":[40,55,77,244,318],"a":[41,51,61,73,83,146,153,239,270,314,322,331],"key":[42,93],"parameter":[43],"informing":[44],"properties":[46],"inferred":[48],"networks.":[49],"Using":[50],"that":[54,76,224,238,313],"too":[56,78,86],"high":[57],"can":[58,80],"result":[59,81],"with":[63,85,197,260,327],"spurious":[65],"links,":[66,88],"making":[67],"it":[68],"difficult":[69,230],"interpret.":[71],"Conversely,":[72],"low":[79],"few":[87],"which":[89,157],"may":[90,338],"not":[91],"capture":[92,133,278,321],"insights":[94],"into":[95],"clusters":[96,185,220],"concern.":[100],"Published":[101],"research":[102],"using":[103,211],"HIV-TRACE":[105],"software":[106],"package":[107],"frequently":[108],"uses":[109],"default":[111],"0.015":[114,240],"substitutions/site":[115,241],"HIV":[117],"pol":[118],"gene":[119],"sequences,":[120],"but":[121],"cases,":[124],"investigators":[125],"heuristically":[126],"select":[127],"other":[128],"parameters":[130],"better":[132,277],"underlying":[135],"dynamics":[136],"epidemic":[139],"they":[140],"are":[141],"studying.":[142],"Here,":[143],"we":[144,236,311],"present":[145,186],"general":[147],"heuristic":[148,194],"scoring":[149,193,213],"approach":[150],"tuning":[152],"adaptively,":[156],"seeks":[158],"prevent":[160],"formation":[162],"giant":[164],"clusters.":[165],"We":[166,190],"prioritize":[167],"ratio":[169],"sizes":[172],"largest":[175,179],"second":[178],"cluster,":[180],"maximizing":[181],"number":[183],"network.":[189],"apply":[191],"our":[192],"outbreaks":[196,250],"different":[198],"characteristics,":[199],"such":[200],"as":[201,288],"regional":[202],"or":[203],"temporal":[204],"variability,":[205],"demonstrate":[207],"utility":[209],"mechanism's":[214],"suggested":[215],"identify":[219],"exhibiting":[221],"risk":[222,291,324],"factors":[223],"would":[225],"have":[226,258,265,269],"otherwise":[227],"been":[228,266,304],"more":[229,323,341],"identify.":[232],"example,":[234],"while":[235],"found":[237,267,312],"typical":[245],"US-like":[247],"epidemics,":[248],"recent":[249],"like":[251],"CRF07_BC":[253],"subtype":[254],"among":[255],"men":[256,261],"who":[257],"sex":[259],"(MSM)":[262],"China":[264],"lower":[271],"optimal":[272],"0.005":[275],"transition":[280],"injected":[282],"drug":[283],"use":[284],"(IDU)":[285],"MSM":[287],"primary":[290],"factor.":[292],"Alternatively,":[293],"communities":[295],"surrounding":[296],"Lake":[297],"Victoria":[298],"Uganda,":[300],"where":[301],"there":[302],"has":[303],"sustained":[305],"heterosexual":[306],"years,":[310],"larger":[315],"necessary":[319],"factor-diverse":[325],"population":[326],"sparse":[328],"sampling":[329],"over":[330],"longer":[332],"period":[333],"time.":[335],"Such":[336],"identification":[337],"allow":[339],"informed":[342],"intervention":[343],"action":[344],"by":[345],"respective":[346],"officials.":[349]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
