{"id":"https://openalex.org/W2899264342","doi":"https://doi.org/10.1186/s12859-018-2363-3","title":"Cluster oligonucleotide signatures for rapid identification by sequencing","display_name":"Cluster oligonucleotide signatures for rapid identification by sequencing","publication_year":2018,"publication_date":"2018-10-29","ids":{"openalex":"https://openalex.org/W2899264342","doi":"https://doi.org/10.1186/s12859-018-2363-3","mag":"2899264342","pmid":"https://pubmed.ncbi.nlm.nih.gov/30522439"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2363-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2363-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2363-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2363-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059026848","display_name":"Manuel Zahariev","orcid":"https://orcid.org/0000-0003-1105-3223"},"institutions":[{"id":"https://openalex.org/I1331897569","display_name":"Agriculture and Agri-Food Canada","ror":"https://ror.org/051dzs374","country_code":"CA","type":"government","lineage":["https://openalex.org/I1331897569","https://openalex.org/I2802286613"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Manuel Zahariev","raw_affiliation_strings":["Ottawa R&D Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, ON, K1A 0C6, Canada. mz@alumni.sfu.ca","Ottawa R&D Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, ON, K1A 0C6, Canada"],"raw_orcid":"https://orcid.org/0000-0003-1105-3223","affiliations":[{"raw_affiliation_string":"Ottawa R&D Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, ON, K1A 0C6, Canada. mz@alumni.sfu.ca","institution_ids":["https://openalex.org/I1331897569"]},{"raw_affiliation_string":"Ottawa R&D Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, ON, K1A 0C6, Canada","institution_ids":["https://openalex.org/I1331897569"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086344606","display_name":"Wen Chen","orcid":"https://orcid.org/0000-0003-2956-5462"},"institutions":[{"id":"https://openalex.org/I4210159769","display_name":"ARC Technology (United States)","ror":"https://ror.org/05w34fa93","country_code":"US","type":"company","lineage":["https://openalex.org/I4210159769"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Wen Chen","raw_affiliation_strings":["Skwez Technology Corp, Box 3674, Garibaldi Highlands, BC, V0N 1T0, Canada. Wen.Chen@arc.gc.ca","Skwez Technology Corp, Box 3674, Garibaldi Highlands, BC, V0N 1T0, Canada"],"raw_orcid":"https://orcid.org/0000-0003-2956-5462","affiliations":[{"raw_affiliation_string":"Skwez Technology Corp, Box 3674, Garibaldi Highlands, BC, V0N 1T0, Canada. Wen.Chen@arc.gc.ca","institution_ids":["https://openalex.org/I4210159769"]},{"raw_affiliation_string":"Skwez Technology Corp, Box 3674, Garibaldi Highlands, BC, V0N 1T0, Canada","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057531940","display_name":"Cobus M. Visagie","orcid":"https://orcid.org/0000-0003-2367-5353"},"institutions":[{"id":"https://openalex.org/I4210151505","display_name":"Agricultural Research Council of South Africa","ror":"https://ror.org/04r1s2546","country_code":"ZA","type":"government","lineage":["https://openalex.org/I4210151505"]}],"countries":["ZA"],"is_corresponding":false,"raw_author_name":"Cobus M. Visagie","raw_affiliation_strings":["The Agricultural Research Counci -PPRI, P/Bag X134, Queenswood, 0121, South Africa","The Agricultural Research Counci \u2013PPRI, P/Bag X134, Queenswood, 0121, South Africa"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Agricultural Research Counci -PPRI, P/Bag X134, Queenswood, 0121, South Africa","institution_ids":["https://openalex.org/I4210151505"]},{"raw_affiliation_string":"The Agricultural Research Counci \u2013PPRI, P/Bag X134, Queenswood, 0121, South Africa","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012102217","display_name":"C. Andr\u00e9 L\u00e9vesque","orcid":"https://orcid.org/0000-0002-3331-5741"},"institutions":[{"id":"https://openalex.org/I1307613440","display_name":"Canadian Food Inspection Agency","ror":"https://ror.org/00qxr8t08","country_code":"CA","type":"government","lineage":["https://openalex.org/I1307613440"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"C. Andr\u00e9 L\u00e9vesque","raw_affiliation_strings":["Sidney Laboratory Project - Science, Canadian Food Inspection Agency, Floor 2E, Room 233, 59 Camelot Drive, Ottawa, ON, K1A 0Y9, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sidney Laboratory Project - Science, Canadian Food Inspection Agency, Floor 2E, Room 233, 59 Camelot Drive, Ottawa, ON, K1A 0Y9, Canada","institution_ids":["https://openalex.org/I1307613440"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5059026848","https://openalex.org/A5086344606"],"corresponding_institution_ids":["https://openalex.org/I1331897569","https://openalex.org/I4210159769"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.3712,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.61397441,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"19","issue":"1","first_page":"395","last_page":"395"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.7563999891281128,"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":0.7563999891281128,"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/T10066","display_name":"Gut microbiota and health","score":0.023600000888109207,"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/T10150","display_name":"Antifungal resistance and susceptibility","score":0.018300000578165054,"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/computational-biology","display_name":"Computational biology","score":0.6670383810997009},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.6280559301376343},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.592090904712677},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5816036462783813},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5624809265136719},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5281051397323608},{"id":"https://openalex.org/keywords/oligonucleotide","display_name":"Oligonucleotide","score":0.46138837933540344},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.45124220848083496},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.4258435368537903},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4203202724456787},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.4141276776790619},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3964475989341736},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3634730279445648},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.20089581608772278},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1413712203502655},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.11944252252578735}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6670383810997009},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6280559301376343},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.592090904712677},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5816036462783813},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5624809265136719},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5281051397323608},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.46138837933540344},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.45124220848083496},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.4258435368537903},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4203202724456787},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.4141276776790619},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3964475989341736},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3634730279445648},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.20089581608772278},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1413712203502655},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.11944252252578735},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"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/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D009841","descriptor_name":"Oligonucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009841","descriptor_name":"Oligonucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009841","descriptor_name":"Oligonucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009841","descriptor_name":"Oligonucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-018-2363-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2363-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2363-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30522439","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30522439","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:ed38d9480ed048ac9b8ffcfc51e01671","is_oa":false,"landing_page_url":"https://doaj.org/article/ed38d9480ed048ac9b8ffcfc51e01671","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss 1, Pp 1-14 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5262407","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6284311","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2363-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2363-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2363-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Reduced inequalities","score":0.6600000262260437,"id":"https://metadata.un.org/sdg/10"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320334595","display_name":"Agriculture and Agri-Food Canada","ror":"https://ror.org/051dzs374"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2899264342.pdf","grobid_xml":"https://content.openalex.org/works/W2899264342.grobid-xml"},"referenced_works_count":82,"referenced_works":["https://openalex.org/W1125634552","https://openalex.org/W1483247593","https://openalex.org/W1893970331","https://openalex.org/W1942729492","https://openalex.org/W1970926544","https://openalex.org/W1976657965","https://openalex.org/W1980355960","https://openalex.org/W1988442455","https://openalex.org/W1997989653","https://openalex.org/W1999001165","https://openalex.org/W1999195817","https://openalex.org/W2000042664","https://openalex.org/W2000589358","https://openalex.org/W2006465310","https://openalex.org/W2012080711","https://openalex.org/W2026283092","https://openalex.org/W2031611770","https://openalex.org/W2031992077","https://openalex.org/W2041296708","https://openalex.org/W2053395706","https://openalex.org/W2053818267","https://openalex.org/W2055043387","https://openalex.org/W2073569767","https://openalex.org/W2074231493","https://openalex.org/W2074722678","https://openalex.org/W2079520182","https://openalex.org/W2088998577","https://openalex.org/W2095595785","https://openalex.org/W2097383747","https://openalex.org/W2099327002","https://openalex.org/W2101305949","https://openalex.org/W2104342875","https://openalex.org/W2106533426","https://openalex.org/W2106542343","https://openalex.org/W2108718991","https://openalex.org/W2110375946","https://openalex.org/W2112333437","https://openalex.org/W2114716657","https://openalex.org/W2115921802","https://openalex.org/W2116647265","https://openalex.org/W2122369731","https://openalex.org/W2123837003","https://openalex.org/W2124351063","https://openalex.org/W2124464500","https://openalex.org/W2124715997","https://openalex.org/W2124927293","https://openalex.org/W2127290349","https://openalex.org/W2128124531","https://openalex.org/W2131980582","https://openalex.org/W2143280034","https://openalex.org/W2146057108","https://openalex.org/W2150991111","https://openalex.org/W2152149926","https://openalex.org/W2152261619","https://openalex.org/W2152885278","https://openalex.org/W2155806125","https://openalex.org/W2156542082","https://openalex.org/W2159954944","https://openalex.org/W2160378127","https://openalex.org/W2160947363","https://openalex.org/W2165145683","https://openalex.org/W2167372793","https://openalex.org/W2170747616","https://openalex.org/W2211038293","https://openalex.org/W2297264164","https://openalex.org/W2307206101","https://openalex.org/W2323326409","https://openalex.org/W2332679740","https://openalex.org/W2337508844","https://openalex.org/W2509945899","https://openalex.org/W2533132894","https://openalex.org/W2559838906","https://openalex.org/W2588207325","https://openalex.org/W2592811885","https://openalex.org/W2621878078","https://openalex.org/W2950226583","https://openalex.org/W2970675229","https://openalex.org/W3103362336","https://openalex.org/W3150945973","https://openalex.org/W4213267564","https://openalex.org/W4240265857","https://openalex.org/W4242729757"],"related_works":["https://openalex.org/W2912862995","https://openalex.org/W3129816939","https://openalex.org/W2985427592","https://openalex.org/W2101501829","https://openalex.org/W2400569965","https://openalex.org/W2060263731","https://openalex.org/W2003194288","https://openalex.org/W2171396485","https://openalex.org/W2048404795","https://openalex.org/W2034858540"],"abstract_inverted_index":{"BACKGROUND:":[0],"Oligonucleotide":[1,150],"signatures":[2,44,52,104,123,165],"(signatures)":[3],"have":[4],"been":[5,141],"widely":[6],"used":[7],"for":[8,20,42,70,108,124],"studying":[9],"microbial":[10],"diversity":[11],"and":[12,75,93,111,134,158,169,181,200],"function":[13],"in":[14,22,57,99,125,155,192,201,205],"wet-lab":[15],"settings,":[16],"but":[17],"using":[18],"them":[19],"accurate":[21],"silico":[23,126],"identification":[24,127],"of":[25,36,97,118,128],"organisms":[26,199],"from":[27,183,196],"high-throughput":[28],"sequencing":[29,82,186],"(HTS)":[30],"data":[31,101],"is":[32],"only":[33],"a":[34,58,100,167],"proof":[35],"concept.":[37],"Existing":[38],"signature":[39],"design":[40,110],"programs":[41],"sequence":[43,56],"(signatures":[45,53],"matching":[46,54],"exactly":[47],"one":[48],"sequence)":[49],"or":[50,207],"clade":[51,119],"every":[55],"phylogenetic":[59],"clade)":[60],"are":[61,189],"not":[62],"able":[63],"to":[64,173],"identify":[65,174],"all":[66,175],"possible":[67,176],"polymorphic":[68],"sites":[69],"sequences":[71,98,115],"with":[72],"high":[73],"similarity":[74],"perform":[76],"poorly":[77],"when":[78],"handling":[79],"large":[80],"genome":[81],"datasets.":[83],"RESULTS:":[84],"We":[85],"introduce":[86],"cluster":[87,122],"signatures:":[88],"subsequences":[89],"that":[90,117],"match":[91],"perfectly":[92,208],"exclusively":[94],"any":[95,184],"group":[96],"set.":[102],"Cluster":[103,164],"provide":[105,166],"complete":[106],"recall":[107],"primer/probe":[109],"increased":[112],"discrimination":[113],"between":[114],"beyond":[116],"signatures.":[120],"Using":[121],"HTS":[129],"targets":[130],"achieves":[131],"good":[132],"precision/recall":[133],"running":[135],"time":[136],"performance.":[137],"This":[138],"method":[139],"has":[140],"implemented":[142],"into":[143],"an":[144],"open":[145],"source":[146],"tool,":[147],"the":[148],"Automated":[149],"Design":[151],"Pipeline":[152],"(adop),":[153],"included":[154],"supplementary":[156],"material":[157,195],"available":[159],"at:":[160],"https://bitbucket.org/wenchen_aafc/aodp_v2.0_release":[161],".":[162],"CONCLUSIONS:":[163],"rapid":[168],"universal":[170],"analysis":[171],"tool":[172],"short":[177],"diagnostic":[178],"DNA":[179,185],"markers":[180],"variants":[182],"dataset.":[187],"They":[188],"particularly":[190],"useful":[191],"discriminating":[193],"genetic":[194],"closely":[197],"related":[198],"detecting":[202],"deleterious":[203],"mutations":[204],"highly":[206],"conserved":[209],"genomic":[210],"sites.":[211]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}