{"id":"https://openalex.org/W3000021702","doi":"https://doi.org/10.1093/bioinformatics/btz960","title":"BCdatabaser: on-the-fly reference database creation for (meta-)barcoding","display_name":"BCdatabaser: on-the-fly reference database creation for (meta-)barcoding","publication_year":2019,"publication_date":"2019-12-31","ids":{"openalex":"https://openalex.org/W3000021702","doi":"https://doi.org/10.1093/bioinformatics/btz960","mag":"3000021702","pmid":"https://pubmed.ncbi.nlm.nih.gov/31904820"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz960","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz960","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"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/A5004577729","display_name":"Alexander Keller","orcid":"https://orcid.org/0000-0001-5716-3634"},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Alexander Keller","raw_affiliation_strings":["Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany"],"raw_orcid":"https://orcid.org/0000-0001-5716-3634","affiliations":[{"raw_affiliation_string":"Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]},{"raw_affiliation_string":"Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069526798","display_name":"Sonja C.Y. Hohlfeld","orcid":null},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sonja Hohlfeld","raw_affiliation_strings":["Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044311501","display_name":"Andreas Kolter","orcid":"https://orcid.org/0000-0001-9327-2053"},"institutions":[{"id":"https://openalex.org/I200763008","display_name":"Justus-Liebig-Universit\u00e4t Gie\u00dfen","ror":"https://ror.org/033eqas34","country_code":"DE","type":"education","lineage":["https://openalex.org/I200763008"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Andreas Kolter","raw_affiliation_strings":["Department of Biology, Systematic Botany, Justus-Liebig-University Giessen , Giessen 35392, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Systematic Botany, Justus-Liebig-University Giessen , Giessen 35392, Germany","institution_ids":["https://openalex.org/I200763008"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108354950","display_name":"J\u00f6rg Schultz","orcid":"https://orcid.org/0000-0002-0838-7700"},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"J\u00f6rg Schultz","raw_affiliation_strings":["Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]},{"raw_affiliation_string":"Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081064481","display_name":"Birgit Gemeinholzer","orcid":"https://orcid.org/0000-0002-9145-9284"},"institutions":[{"id":"https://openalex.org/I200763008","display_name":"Justus-Liebig-Universit\u00e4t Gie\u00dfen","ror":"https://ror.org/033eqas34","country_code":"DE","type":"education","lineage":["https://openalex.org/I200763008"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Birgit Gemeinholzer","raw_affiliation_strings":["Department of Biology, Systematic Botany, Justus-Liebig-University Giessen , Giessen 35392, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Systematic Botany, Justus-Liebig-University Giessen , Giessen 35392, Germany","institution_ids":["https://openalex.org/I200763008"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5004411749","display_name":"Markus J. Ankenbrand","orcid":"https://orcid.org/0000-0002-6620-807X"},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Markus J Ankenbrand","raw_affiliation_strings":["Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Computational and Theoretical Biology, University of W\u00fcrzburg , Hubland Nord, W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]},{"raw_affiliation_string":"Department of Bioinformatics, University of W\u00fcrzburg, Biocenter, Am Hubland , W\u00fcrzburg 97074, Germany","institution_ids":["https://openalex.org/I25974101"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5004577729"],"corresponding_institution_ids":["https://openalex.org/I25974101"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":3.1382,"has_fulltext":false,"cited_by_count":58,"citation_normalized_percentile":{"value":0.91774105,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"36","issue":"8","first_page":"2630","last_page":"2631"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.426800012588501,"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/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.426800012588501,"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/T12606","display_name":"Diptera species taxonomy and behavior","score":0.10809999704360962,"subfield":{"id":"https://openalex.org/subfields/1105","display_name":"Ecology, Evolution, Behavior and Systematics"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11706","display_name":"Forensic Entomology and Diptera Studies","score":0.054499998688697815,"subfield":{"id":"https://openalex.org/subfields/1109","display_name":"Insect Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/disk-formatting","display_name":"Disk formatting","score":0.8391467332839966},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6826086640357971},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6582838296890259},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6430152058601379},{"id":"https://openalex.org/keywords/documentation","display_name":"Documentation","score":0.6300091743469238},{"id":"https://openalex.org/keywords/dna-barcoding","display_name":"DNA barcoding","score":0.5804038047790527},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.5491117835044861},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.5179190039634705},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5150789618492126},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.41607680916786194},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.41258955001831055},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20036768913269043},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1121523380279541},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.08367809653282166}],"concepts":[{"id":"https://openalex.org/C88006597","wikidata":"https://www.wikidata.org/wiki/Q690117","display_name":"Disk formatting","level":2,"score":0.8391467332839966},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6826086640357971},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6582838296890259},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6430152058601379},{"id":"https://openalex.org/C56666940","wikidata":"https://www.wikidata.org/wiki/Q788790","display_name":"Documentation","level":2,"score":0.6300091743469238},{"id":"https://openalex.org/C141732470","wikidata":"https://www.wikidata.org/wiki/Q1154642","display_name":"DNA barcoding","level":2,"score":0.5804038047790527},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.5491117835044861},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5179190039634705},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5150789618492126},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.41607680916786194},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.41258955001831055},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20036768913269043},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1121523380279541},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.08367809653282166},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004282","descriptor_name":"Documentation","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058893","descriptor_name":"DNA Barcoding, Taxonomic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btz960","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz960","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31904820","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31904820","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":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3719593230","display_name":null,"funder_award_id":"KE1743/7-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1837163102","https://openalex.org/W2020917376","https://openalex.org/W2034833171","https://openalex.org/W2056279562","https://openalex.org/W2072970694","https://openalex.org/W2085926377","https://openalex.org/W2087671769","https://openalex.org/W2089848025","https://openalex.org/W2091922579","https://openalex.org/W2093058617","https://openalex.org/W2099901798","https://openalex.org/W2124351063","https://openalex.org/W2137107630","https://openalex.org/W2139306346","https://openalex.org/W2142678031","https://openalex.org/W2152885278","https://openalex.org/W2158714788","https://openalex.org/W2337603118","https://openalex.org/W2513506562","https://openalex.org/W2518795824","https://openalex.org/W2909234488","https://openalex.org/W2912959159","https://openalex.org/W2952267895","https://openalex.org/W4242729757","https://openalex.org/W6726293321"],"related_works":["https://openalex.org/W4244466418","https://openalex.org/W2104062382","https://openalex.org/W2162878363","https://openalex.org/W2389021890","https://openalex.org/W2479325685","https://openalex.org/W4245101192","https://openalex.org/W2146588098","https://openalex.org/W3183791698","https://openalex.org/W3111710556","https://openalex.org/W3081644756"],"abstract_inverted_index":{"SUMMARY:":[0],"DNA":[1],"barcoding":[2],"and":[3,10,35,49,68,79,86,105],"meta-barcoding":[4],"have":[5],"become":[6,37],"irreplaceable":[7],"in":[8,27],"research":[9],"applications,":[11],"where":[12],"identification":[13],"of":[14,42,52],"taxa":[15],"alone":[16],"or":[17],"within":[18],"a":[19,57,66,96],"mixture,":[20],"respectively,":[21],"becomes":[22],"relevant.":[23],"Pioneering":[24],"studies":[25],"were":[26],"the":[28,40],"microbiological":[29],"context,":[30],"yet":[31],"nowadays":[32],"also":[33],"plants":[34],"animals":[36],"targeted.":[38],"Given":[39],"variety":[41],"markers":[43],"used,":[44],"formatting":[45,85],"requirements":[46],"for":[47,59,75,89],"classifiers":[48],"constant":[50],"growth":[51],"primary":[53],"databases,":[54],"there":[55],"is":[56],"need":[58],"dedicated":[60],"reference":[61],"database":[62],"creation.":[63],"We":[64],"developed":[65],"web":[67],"command-line":[69],"interface":[70],"to":[71],"generate":[72],"such":[73],"on-the-fly":[74],"any":[76],"applicable":[77],"marker":[78],"taxonomic":[80],"group":[81],"with":[82,101],"optional":[83],"filtering,":[84],"restriction":[87],"specific":[88],"(meta-)barcoding":[90],"purposes.":[91],"Also,":[92],"databases":[93],"optionally":[94],"receive":[95],"DOI,":[97],"making":[98],"them":[99],"well-documented":[100],"meta-data,":[102],"publicly":[103],"sharable":[104],"citable.":[106],"AVAILABILITY":[107],"AND":[108],"IMPLEMENTATION:":[109],"source":[110],"code:":[111],"https://www.github.com/molbiodiv/bcdatabaser,":[112],"webservice:":[113],"https://bcdatabaser.molecular.eco,":[114],"documentation:":[115],"https://molbiodiv.github.io/bcdatabaser.":[116]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":10},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":6}],"updated_date":"2026-08-27T14:10:00.468798","created_date":"2025-10-10T00:00:00"}
