{"id":"https://openalex.org/W2106670570","doi":"https://doi.org/10.1186/1471-2105-15-44","title":"The HTS barcode checkerpipeline, a tool for automated detection of illegally traded species from high-throughput sequencing data","display_name":"The HTS barcode checkerpipeline, a tool for automated detection of illegally traded species from high-throughput sequencing data","publication_year":2014,"publication_date":"2014-02-06","ids":{"openalex":"https://openalex.org/W2106670570","doi":"https://doi.org/10.1186/1471-2105-15-44","mag":"2106670570","pmid":"https://pubmed.ncbi.nlm.nih.gov/24502833"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-15-44","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-44","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-15-44","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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/10.1186/1471-2105-15-44","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066278788","display_name":"Youri Lammers","orcid":"https://orcid.org/0000-0003-0952-2668"},"institutions":[{"id":"https://openalex.org/I1295562517","display_name":"Naturalis Biodiversity Center","ror":"https://ror.org/0566bfb96","country_code":"NL","type":"archive","lineage":["https://openalex.org/I1295562517"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Youri Lammers","raw_affiliation_strings":["Naturalis Biodiversity Center, Darwinweg 4, 2333, CR, Leiden, The Netherlands","Naturalis Biodiversity Center; Leiden The Netherlands"],"affiliations":[{"raw_affiliation_string":"Naturalis Biodiversity Center, Darwinweg 4, 2333, CR, Leiden, The Netherlands","institution_ids":["https://openalex.org/I1295562517"]},{"raw_affiliation_string":"Naturalis Biodiversity Center; Leiden The Netherlands","institution_ids":["https://openalex.org/I1295562517"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006032212","display_name":"Tamara Peelen","orcid":null},"institutions":[{"id":"https://openalex.org/I4210109825","display_name":"Belastingdienst","ror":"https://ror.org/01qh5w602","country_code":"NL","type":"government","lineage":["https://openalex.org/I1314811817","https://openalex.org/I4210109825","https://openalex.org/I4210140876"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Tamara Peelen","raw_affiliation_strings":["Dutch Customs Laboratory, Kingsfordweg 1, 1043, GN, Amsterdam, The Netherlands","Dutch Customs Laboratory, Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Dutch Customs Laboratory, Kingsfordweg 1, 1043, GN, Amsterdam, The Netherlands","institution_ids":[]},{"raw_affiliation_string":"Dutch Customs Laboratory, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I4210109825"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053461897","display_name":"Rutger Vos","orcid":"https://orcid.org/0000-0001-9254-7318"},"institutions":[{"id":"https://openalex.org/I1295562517","display_name":"Naturalis Biodiversity Center","ror":"https://ror.org/0566bfb96","country_code":"NL","type":"archive","lineage":["https://openalex.org/I1295562517"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Rutger A Vos","raw_affiliation_strings":["Naturalis Biodiversity Center, Darwinweg 4, 2333, CR, Leiden, The Netherlands","Naturalis Biodiversity Center; Leiden The Netherlands"],"affiliations":[{"raw_affiliation_string":"Naturalis Biodiversity Center, Darwinweg 4, 2333, CR, Leiden, The Netherlands","institution_ids":["https://openalex.org/I1295562517"]},{"raw_affiliation_string":"Naturalis Biodiversity Center; Leiden The Netherlands","institution_ids":["https://openalex.org/I1295562517"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010935061","display_name":"Barbara Gravendeel","orcid":"https://orcid.org/0000-0002-6508-0895"},"institutions":[{"id":"https://openalex.org/I210716285","display_name":"University of Applied Sciences Leiden","ror":"https://ror.org/0093src13","country_code":"NL","type":"education","lineage":["https://openalex.org/I210716285"]},{"id":"https://openalex.org/I121797337","display_name":"Leiden University","ror":"https://ror.org/027bh9e22","country_code":"NL","type":"education","lineage":["https://openalex.org/I121797337"]},{"id":"https://openalex.org/I1295562517","display_name":"Naturalis Biodiversity Center","ror":"https://ror.org/0566bfb96","country_code":"NL","type":"archive","lineage":["https://openalex.org/I1295562517"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Barbara Gravendeel","raw_affiliation_strings":["Naturalis Biodiversity Center, Darwinweg 4, 2333 CR Leiden, The Netherlands. Barbara.Gravendeel@naturalis.nl","Naturalis Biodiversity Center, Leiden, The Netherlands","University of Applied Sciences Leiden, Leiden, The Netherlands","Leiden University, Faculty of Science, Leiden, The Netherlands"],"affiliations":[{"raw_affiliation_string":"Naturalis Biodiversity Center, Darwinweg 4, 2333 CR Leiden, The Netherlands. Barbara.Gravendeel@naturalis.nl","institution_ids":[]},{"raw_affiliation_string":"Naturalis Biodiversity Center, Leiden, The Netherlands","institution_ids":["https://openalex.org/I1295562517"]},{"raw_affiliation_string":"University of Applied Sciences Leiden, Leiden, The Netherlands","institution_ids":["https://openalex.org/I210716285"]},{"raw_affiliation_string":"Leiden University, Faculty of Science, Leiden, The Netherlands","institution_ids":["https://openalex.org/I121797337"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5066278788"],"corresponding_institution_ids":["https://openalex.org/I1295562517"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.7079,"has_fulltext":true,"cited_by_count":19,"citation_normalized_percentile":{"value":0.84225535,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"15","issue":"1","first_page":"44","last_page":"44"},"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/T12388","display_name":"Identification and Quantification in Food","score":0.9994000196456909,"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/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.9979000091552734,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/barcode","display_name":"Barcode","score":0.884514331817627},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.6516432762145996},{"id":"https://openalex.org/keywords/cites","display_name":"CITES","score":0.626585066318512},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.5598966479301453},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.5384680032730103},{"id":"https://openalex.org/keywords/dna-barcoding","display_name":"DNA barcoding","score":0.52790766954422},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.47860902547836304},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4359118342399597},{"id":"https://openalex.org/keywords/fishery","display_name":"Fishery","score":0.15125098824501038},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.1488068401813507},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13206356763839722},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.13186907768249512}],"concepts":[{"id":"https://openalex.org/C2776841711","wikidata":"https://www.wikidata.org/wiki/Q856","display_name":"Barcode","level":2,"score":0.884514331817627},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.6516432762145996},{"id":"https://openalex.org/C95803793","wikidata":"https://www.wikidata.org/wiki/Q191836","display_name":"CITES","level":2,"score":0.626585066318512},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.5598966479301453},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.5384680032730103},{"id":"https://openalex.org/C141732470","wikidata":"https://www.wikidata.org/wiki/Q1154642","display_name":"DNA barcoding","level":2,"score":0.52790766954422},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.47860902547836304},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4359118342399597},{"id":"https://openalex.org/C505870484","wikidata":"https://www.wikidata.org/wiki/Q180538","display_name":"Fishery","level":1,"score":0.15125098824501038},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.1488068401813507},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13206356763839722},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.13186907768249512},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002965","descriptor_name":"Classification","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002965","descriptor_name":"Classification","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002965","descriptor_name":"Classification","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004365","descriptor_name":"Drugs, Chinese Herbal","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D004365","descriptor_name":"Drugs, Chinese Herbal","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D004365","descriptor_name":"Drugs, Chinese Herbal","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D008516","descriptor_name":"Medicine, Chinese Traditional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008516","descriptor_name":"Medicine, Chinese Traditional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008516","descriptor_name":"Medicine, Chinese Traditional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056727","descriptor_name":"Endangered Species","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":false},{"descriptor_ui":"D056727","descriptor_name":"Endangered Species","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":false},{"descriptor_ui":"D056727","descriptor_name":"Endangered Species","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-15-44","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-44","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-15-44","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24502833","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24502833","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:europepmc.org:2905976","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3922334","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:10.1186/1471-2105-15-44","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-44","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-15-44","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4300000071525574,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2106670570.pdf","grobid_xml":"https://content.openalex.org/works/W2106670570.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W150570126","https://openalex.org/W570265017","https://openalex.org/W1502434891","https://openalex.org/W1507593999","https://openalex.org/W1552996091","https://openalex.org/W1981839438","https://openalex.org/W1984999127","https://openalex.org/W2055043387","https://openalex.org/W2061680337","https://openalex.org/W2071510336","https://openalex.org/W2072022921","https://openalex.org/W2073252818","https://openalex.org/W2099901798","https://openalex.org/W2103961200","https://openalex.org/W2107347656","https://openalex.org/W2114850508","https://openalex.org/W2125418992","https://openalex.org/W2136482257","https://openalex.org/W2142678478","https://openalex.org/W2145252923","https://openalex.org/W2153298414","https://openalex.org/W2156125289","https://openalex.org/W2161645441","https://openalex.org/W2170596217","https://openalex.org/W2726651211","https://openalex.org/W2961549061","https://openalex.org/W4212865600","https://openalex.org/W4299357110","https://openalex.org/W4319587689","https://openalex.org/W6812412690"],"related_works":["https://openalex.org/W4205559809","https://openalex.org/W3090505631","https://openalex.org/W2952025703","https://openalex.org/W2402613932","https://openalex.org/W2111456242","https://openalex.org/W4291786356","https://openalex.org/W2360712899","https://openalex.org/W2097619744","https://openalex.org/W2509660947","https://openalex.org/W2394007119"],"abstract_inverted_index":{"The":[0,26,50],"HTS":[1,51],"barcode":[2,52],"checker":[3,53],"pipeline":[4,27,54],"can":[5,39],"detect":[6],"and":[7,29,38],"correctly":[8],"identify":[9],"DNA":[10],"barcodes":[11],"of":[12,33],"CITES-protected":[13],"species":[14,44],"from":[15,18,45],"reads":[16],"obtained":[17],"TCM":[19],"samples":[20],"in":[21,35,41,47],"just":[22],"a":[23],"few":[24],"minutes.":[25],"facilitates":[28],"improves":[30],"molecular":[31],"monitoring":[32],"trade":[34],"endangered":[36],"species,":[37],"aid":[40],"safeguarding":[42],"these":[43],"extinction":[46],"the":[48],"wild.":[49],"is":[55],"available":[56],"at":[57],"https://github.com/naturalis/HTS-barcode-checker.":[58]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
