{"id":"https://openalex.org/W1963922411","doi":"https://doi.org/10.1109/iccabs.2013.6629224","title":"Estimation of viral population structure from amplicon-based reads","display_name":"Estimation of viral population structure from amplicon-based reads","publication_year":2013,"publication_date":"2013-06-01","ids":{"openalex":"https://openalex.org/W1963922411","doi":"https://doi.org/10.1109/iccabs.2013.6629224","mag":"1963922411"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2013.6629224","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2013.6629224","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE 3rd 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/A5029082038","display_name":"Nicholas Mancuso","orcid":"https://orcid.org/0000-0002-9352-5927"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nicholas Mancuso","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","Department of Computer Science , Georgia State University , Atlanta, GA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Department of Computer Science , Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074859035","display_name":"Alexander Artyomenko","orcid":"https://orcid.org/0000-0002-5635-3118"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander Artyomenko","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","Department of Computer Science , Georgia State University , Atlanta, GA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Department of Computer Science , Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072751459","display_name":"Alex Zelikovsky","orcid":"https://orcid.org/0000-0003-4424-4691"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex Zelikovsky","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","Department of Computer Science , Georgia State University , Atlanta, GA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"Department of Computer Science , Georgia State University , Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052456631","display_name":"Pavel Skums","orcid":"https://orcid.org/0000-0003-4007-5624"},"institutions":[{"id":"https://openalex.org/I1289490764","display_name":"Centers for Disease Control and Prevention","ror":"https://ror.org/042twtr12","country_code":"US","type":"funder","lineage":["https://openalex.org/I1289490764","https://openalex.org/I1299022934"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pavel Skums","raw_affiliation_strings":["Centers for Disease Control and Prevention, Atlanta, GA, USA","Centers for Disease Control and Prevention Atlanta GA USA"],"affiliations":[{"raw_affiliation_string":"Centers for Disease Control and Prevention, Atlanta, GA, USA","institution_ids":["https://openalex.org/I1289490764"]},{"raw_affiliation_string":"Centers for Disease Control and Prevention Atlanta GA USA","institution_ids":["https://openalex.org/I1289490764"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014788373","display_name":"Ion M\u0103ndoiu","orcid":"https://orcid.org/0000-0002-4818-0237"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ion Mandoiu","raw_affiliation_strings":["Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","Dept. of Computer Science and Engineering, Univ. of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]},{"raw_affiliation_string":"Dept. of Computer Science and Engineering, Univ. of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5029082038"],"corresponding_institution_ids":["https://openalex.org/I181565077"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.06447428,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9993000030517578,"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"}},"topics":[{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9993000030517578,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9916999936103821,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/computer-science","display_name":"Computer science","score":0.6683369874954224},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.6409578323364258},{"id":"https://openalex.org/keywords/amplicon","display_name":"Amplicon","score":0.5423650741577148},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5256037712097168},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.4824124574661255},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.47471749782562256},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3236173987388611},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2875245213508606},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28095823526382446},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1925715208053589},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11737880110740662},{"id":"https://openalex.org/keywords/polymerase-chain-reaction","display_name":"Polymerase chain reaction","score":0.06303355097770691}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6683369874954224},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.6409578323364258},{"id":"https://openalex.org/C8185291","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon","level":4,"score":0.5423650741577148},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5256037712097168},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.4824124574661255},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.47471749782562256},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3236173987388611},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2875245213508606},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28095823526382446},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1925715208053589},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11737880110740662},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.06303355097770691},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/iccabs.2013.6629224","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2013.6629224","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE 3rd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":2,"referenced_works":["https://openalex.org/W1878374750","https://openalex.org/W2159021003"],"related_works":["https://openalex.org/W2995118009","https://openalex.org/W2786748503","https://openalex.org/W2011298649","https://openalex.org/W1966203981","https://openalex.org/W1919212819","https://openalex.org/W2077117870","https://openalex.org/W3201428053","https://openalex.org/W2070136414","https://openalex.org/W2329496086","https://openalex.org/W2595855044"],"abstract_inverted_index":{"Accurately":[0],"estimating":[1],"the":[2,26,46,57,72],"structure":[3,48],"of":[4,28,67,91],"highly":[5],"diverse":[6],"viral":[7,58,93],"populations":[8],"is":[9,25],"a":[10,21,70,86,92,105],"challenging":[11],"task.":[12],"There":[13],"are":[14,65],"two":[15],"main":[16],"impediments":[17],"to":[18],"globally":[19],"reconstructing":[20],"population.":[22],"The":[23],"first":[24],"presence":[27],"sequencing":[29],"errors":[30,36],"in":[31,56,79],"reads.":[32],"Judiciously":[33],"differentiating":[34],"these":[35,80,97],"from":[37],"actual":[38,73],"rare":[39],"variants":[40],"must":[41],"be":[42,50,77],"properly":[43],"handled":[44],"or":[45],"global":[47,89],"may":[49,76],"ill-defined.":[51],"Secondly,":[52],"long":[53],"conserved":[54],"regions":[55],"genome":[59],"extend":[60],"beyond":[61],"what":[62],"modern":[63],"sequencers":[64],"capable":[66],"producing.":[68],"As":[69],"result,":[71],"population":[74,94],"diversity":[75],"hidden":[78],"targeted":[81],"regions.":[82],"We":[83],"propose":[84],"VirA,":[85],"tool":[87],"for":[88],"reconstruction":[90],"that":[95],"overcomes":[96],"obstacles":[98],"by":[99],"combining":[100],"local":[101],"error":[102],"correction":[103],"and":[104],"read-graph":[106],"approach.":[107]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
