{"id":"https://openalex.org/W4390482033","doi":"https://doi.org/10.1109/ssci52147.2023.10371886","title":"Semi-Supervised and Incremental Sequence Analysis for Taxonomic Classification","display_name":"Semi-Supervised and Incremental Sequence Analysis for Taxonomic Classification","publication_year":2023,"publication_date":"2023-12-05","ids":{"openalex":"https://openalex.org/W4390482033","doi":"https://doi.org/10.1109/ssci52147.2023.10371886"},"language":"en","primary_location":{"id":"doi:10.1109/ssci52147.2023.10371886","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/ssci52147.2023.10371886","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE Symposium Series on Computational Intelligence (SSCI)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5027149117","display_name":"Adriana Fasino","orcid":null},"institutions":[{"id":"https://openalex.org/I44265643","display_name":"Rowan University","ror":"https://ror.org/049v69k10","country_code":"US","type":"education","lineage":["https://openalex.org/I44265643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Adriana Fasino","raw_affiliation_strings":["Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","institution_ids":["https://openalex.org/I44265643"]},{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA","institution_ids":["https://openalex.org/I44265643"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039169012","display_name":"Emrecan Ozdogan","orcid":null},"institutions":[{"id":"https://openalex.org/I44265643","display_name":"Rowan University","ror":"https://ror.org/049v69k10","country_code":"US","type":"education","lineage":["https://openalex.org/I44265643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Emrecan Ozdogan","raw_affiliation_strings":["Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","institution_ids":["https://openalex.org/I44265643"]},{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA","institution_ids":["https://openalex.org/I44265643"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038775063","display_name":"Bahrad A. Sokhansanj","orcid":"https://orcid.org/0000-0002-5050-5926"},"institutions":[{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bahrad A. Sokhansanj","raw_affiliation_strings":["Electrical and Computer Eng., Drexel Univ.,Philadelphia,PA,USA","Electrical and Computer Eng., Drexel Univ., Philadelphia, PA, USA"],"raw_orcid":"https://orcid.org/0000-0002-5050-5926","affiliations":[{"raw_affiliation_string":"Electrical and Computer Eng., Drexel Univ.,Philadelphia,PA,USA","institution_ids":["https://openalex.org/I72816309"]},{"raw_affiliation_string":"Electrical and Computer Eng., Drexel Univ., Philadelphia, PA, USA","institution_ids":["https://openalex.org/I72816309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023224900","display_name":"Gail Rosen","orcid":"https://orcid.org/0000-0003-1763-5750"},"institutions":[{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gail Rosen","raw_affiliation_strings":["Electrical and Computer Eng., Drexel Univ.,Philadelphia,PA,USA","Electrical and Computer Eng., Drexel Univ., Philadelphia, PA, USA"],"raw_orcid":"https://orcid.org/0000-0003-1763-5750","affiliations":[{"raw_affiliation_string":"Electrical and Computer Eng., Drexel Univ.,Philadelphia,PA,USA","institution_ids":["https://openalex.org/I72816309"]},{"raw_affiliation_string":"Electrical and Computer Eng., Drexel Univ., Philadelphia, PA, USA","institution_ids":["https://openalex.org/I72816309"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025314990","display_name":"Robi Polikar","orcid":"https://orcid.org/0000-0002-2739-4228"},"institutions":[{"id":"https://openalex.org/I44265643","display_name":"Rowan University","ror":"https://ror.org/049v69k10","country_code":"US","type":"education","lineage":["https://openalex.org/I44265643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robi Polikar","raw_affiliation_strings":["Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA"],"raw_orcid":"https://orcid.org/0000-0002-2739-4228","affiliations":[{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University,Glassboro,NJ,USA","institution_ids":["https://openalex.org/I44265643"]},{"raw_affiliation_string":"Electrical and Computer Eng., Rowan University, Glassboro, NJ, USA","institution_ids":["https://openalex.org/I44265643"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.24651965,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1132","last_page":"1138"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9980000257492065,"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/T10066","display_name":"Gut microbiota and health","score":0.9843999743461609,"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/metagenomics","display_name":"Metagenomics","score":0.8527985215187073},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7157624959945679},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.6797724962234497},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.675026535987854},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5756301879882812},{"id":"https://openalex.org/keywords/biological-classification","display_name":"Biological classification","score":0.5210680365562439},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.48876261711120605},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4852173626422882},{"id":"https://openalex.org/keywords/statistical-classification","display_name":"Statistical classification","score":0.44086676836013794},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.4369155168533325},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4197162389755249},{"id":"https://openalex.org/keywords/supervised-learning","display_name":"Supervised learning","score":0.418946236371994},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3850894272327423},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1385926604270935},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.09022167325019836},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0687926709651947}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8527985215187073},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7157624959945679},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6797724962234497},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.675026535987854},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5756301879882812},{"id":"https://openalex.org/C48702757","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Biological classification","level":2,"score":0.5210680365562439},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.48876261711120605},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4852173626422882},{"id":"https://openalex.org/C110083411","wikidata":"https://www.wikidata.org/wiki/Q1744628","display_name":"Statistical classification","level":2,"score":0.44086676836013794},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.4369155168533325},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4197162389755249},{"id":"https://openalex.org/C136389625","wikidata":"https://www.wikidata.org/wiki/Q334384","display_name":"Supervised learning","level":3,"score":0.418946236371994},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3850894272327423},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1385926604270935},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.09022167325019836},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0687926709651947},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/ssci52147.2023.10371886","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/ssci52147.2023.10371886","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE Symposium Series on Computational Intelligence (SSCI)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.7200000286102295,"display_name":"Life below water","id":"https://metadata.un.org/sdg/14"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1989348205","https://openalex.org/W2005110747","https://openalex.org/W2045204781","https://openalex.org/W2055043387","https://openalex.org/W2124351063","https://openalex.org/W2151350595","https://openalex.org/W2156125289","https://openalex.org/W2303521084","https://openalex.org/W2330205313","https://openalex.org/W2409427249","https://openalex.org/W2513506562","https://openalex.org/W2950954328","https://openalex.org/W2953008890","https://openalex.org/W3087226231","https://openalex.org/W4206970791","https://openalex.org/W4318604561"],"related_works":["https://openalex.org/W2176518797","https://openalex.org/W2150484441","https://openalex.org/W200507450","https://openalex.org/W2968450569","https://openalex.org/W1423314093","https://openalex.org/W2769580580","https://openalex.org/W2337747100","https://openalex.org/W2769261869","https://openalex.org/W1983882630","https://openalex.org/W1604004112"],"abstract_inverted_index":{"Metagenomic":[0],"analysis":[1],"is":[2,74],"vital":[3],"in":[4,10,34,47],"determining":[5],"what":[6],"organisms":[7],"are":[8,17],"present":[9],"a":[11,28],"microbial":[12],"sample":[13],"and":[14,56,81,106,126],"why":[15],"they":[16],"present.":[18],"In":[19],"this":[20,67,135],"study,":[21],"we":[22,59],"explore":[23],"the":[24,44,61,99],"utility":[25],"of":[26,63,83,92],"MMseqs2,":[27,105],"bioinformatics":[29,136],"pipeline,":[30],"for":[31],"taxonomic":[32,90],"classification":[33,65,88,129],"metagenomics,":[35],"focusing":[36],"on":[37],"16S":[38],"rRNA":[39],"gene":[40],"sequences.":[41],"We":[42,96,117],"evaluate":[43,98],"algorithm's":[45],"performance":[46],"full":[48],"dataset":[49],"as":[50,52],"well":[51],"batch-by-batch":[53],"incremental":[54,114],"processing,":[55],"more":[57],"importantly,":[58],"add":[60],"capability":[62,130],"semi-supervised":[64,87,113,128],"to":[66,109,134],"otherwise":[68],"clustering":[69,101],"only":[70],"algorithm.":[71],"Incremental":[72],"updating":[73],"important":[75],"because":[76],"it":[77],"allows":[78,89],"seamless":[79],"integration":[80],"processing":[82,137],"new":[84,132],"data,":[85],"whereas":[86],"identification":[91],"previously":[93,111],"unknown":[94],"organisms.":[95],"also":[97],"different":[100],"modes":[102],"offered":[103],"by":[104],"compare":[107],"MMseqs2":[108],"our":[110,127],"developed":[112],"algorithm":[115],"SSI-VSEARCH.":[116],"show":[118],"that":[119],"MMseqs2's":[120],"built-in":[121],"clusterupdate":[122],"function":[123],"works":[124],"well,":[125],"adds":[131],"functionality":[133],"pipeline.":[138]},"counts_by_year":[],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}
