{"id":"https://openalex.org/W2339835622","doi":"https://doi.org/10.1093/bioinformatics/btw322","title":"Designing robust watermark barcodes for multiplex long-read sequencing","display_name":"Designing robust watermark barcodes for multiplex long-read sequencing","publication_year":2016,"publication_date":"2016-06-03","ids":{"openalex":"https://openalex.org/W2339835622","doi":"https://doi.org/10.1093/bioinformatics/btw322","mag":"2339835622","pmid":"https://pubmed.ncbi.nlm.nih.gov/27259539"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/807/25147945/btw322.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/807/25147945/btw322.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5109469554","display_name":"Joaqu\u00edn Ezpeleta","orcid":null},"institutions":[{"id":"https://openalex.org/I4141589","display_name":"National University of Rosario","ror":"https://ror.org/02tphfq59","country_code":"AR","type":"education","lineage":["https://openalex.org/I4141589"]},{"id":"https://openalex.org/I4210109384","display_name":"Centro Internacional Franco-Argentino de Ciencias de la Informaci\u00f3n y de Sistemas","ror":"https://ror.org/02m19wv39","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I21491767","https://openalex.org/I4141589","https://openalex.org/I4210107757","https://openalex.org/I4210109384","https://openalex.org/I4210123736","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":true,"raw_author_name":"Joaqu\u00edn Ezpeleta","raw_affiliation_strings":["Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","institution_ids":["https://openalex.org/I4210109384"]},{"raw_affiliation_string":"Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina","institution_ids":["https://openalex.org/I4141589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062064060","display_name":"Fl\u00e1via Krsticevic","orcid":"https://orcid.org/0000-0002-3447-0778"},"institutions":[{"id":"https://openalex.org/I4210109384","display_name":"Centro Internacional Franco-Argentino de Ciencias de la Informaci\u00f3n y de Sistemas","ror":"https://ror.org/02m19wv39","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I21491767","https://openalex.org/I4141589","https://openalex.org/I4210107757","https://openalex.org/I4210109384","https://openalex.org/I4210123736","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Flavia J Krsticevic","raw_affiliation_strings":["Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","institution_ids":["https://openalex.org/I4210109384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002620753","display_name":"Pilar Bulacio","orcid":"https://orcid.org/0000-0002-1896-4858"},"institutions":[{"id":"https://openalex.org/I4141589","display_name":"National University of Rosario","ror":"https://ror.org/02tphfq59","country_code":"AR","type":"education","lineage":["https://openalex.org/I4141589"]},{"id":"https://openalex.org/I4210109384","display_name":"Centro Internacional Franco-Argentino de Ciencias de la Informaci\u00f3n y de Sistemas","ror":"https://ror.org/02m19wv39","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I21491767","https://openalex.org/I4141589","https://openalex.org/I4210107757","https://openalex.org/I4210109384","https://openalex.org/I4210123736","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Pilar Bulacio","raw_affiliation_strings":["Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","institution_ids":["https://openalex.org/I4210109384"]},{"raw_affiliation_string":"Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina","institution_ids":["https://openalex.org/I4141589"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005424848","display_name":"Elizabeth Tapia","orcid":"https://orcid.org/0000-0002-9363-4824"},"institutions":[{"id":"https://openalex.org/I4141589","display_name":"National University of Rosario","ror":"https://ror.org/02tphfq59","country_code":"AR","type":"education","lineage":["https://openalex.org/I4141589"]},{"id":"https://openalex.org/I4210109384","display_name":"Centro Internacional Franco-Argentino de Ciencias de la Informaci\u00f3n y de Sistemas","ror":"https://ror.org/02m19wv39","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I21491767","https://openalex.org/I4141589","https://openalex.org/I4210107757","https://openalex.org/I4210109384","https://openalex.org/I4210123736","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Elizabeth Tapia","raw_affiliation_strings":["Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro Internacional Franco Argentino de Ciencias de la Informaci\u00f3n y de Sistemas, Rosario, Argentina","institution_ids":["https://openalex.org/I4210109384"]},{"raw_affiliation_string":"Facultad de Ciencias Exactas, Ingenier\u00eda y Agrimensura, Universidad Nacional de Rosario, Rosario, Argentina","institution_ids":["https://openalex.org/I4141589"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5109469554"],"corresponding_institution_ids":["https://openalex.org/I4141589","https://openalex.org/I4210109384"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.01720405,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"33","issue":"6","first_page":"807","last_page":"813"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12029","display_name":"DNA and Biological Computing","score":0.3718000054359436,"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/T12029","display_name":"DNA and Biological Computing","score":0.3718000054359436,"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/T13270","display_name":"QR Code Applications and Technologies","score":0.10180000215768814,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.04270000010728836,"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/barcode","display_name":"Barcode","score":0.9171679019927979},{"id":"https://openalex.org/keywords/multiplex","display_name":"Multiplex","score":0.7764637470245361},{"id":"https://openalex.org/keywords/watermark","display_name":"Watermark","score":0.7492156624794006},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7155406475067139},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5767045021057129},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.4946536719799042},{"id":"https://openalex.org/keywords/multiplexing","display_name":"Multiplexing","score":0.4760672450065613},{"id":"https://openalex.org/keywords/word-error-rate","display_name":"Word error rate","score":0.44845008850097656},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.37374770641326904},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37264543771743774},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.26630735397338867},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.25012868642807007},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.15729162096977234},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.0709581971168518},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.06760227680206299}],"concepts":[{"id":"https://openalex.org/C2776841711","wikidata":"https://www.wikidata.org/wiki/Q856","display_name":"Barcode","level":2,"score":0.9171679019927979},{"id":"https://openalex.org/C2781188995","wikidata":"https://www.wikidata.org/wiki/Q6934982","display_name":"Multiplex","level":2,"score":0.7764637470245361},{"id":"https://openalex.org/C164112704","wikidata":"https://www.wikidata.org/wiki/Q7974348","display_name":"Watermark","level":3,"score":0.7492156624794006},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7155406475067139},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5767045021057129},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.4946536719799042},{"id":"https://openalex.org/C19275194","wikidata":"https://www.wikidata.org/wiki/Q222903","display_name":"Multiplexing","level":2,"score":0.4760672450065613},{"id":"https://openalex.org/C40969351","wikidata":"https://www.wikidata.org/wiki/Q3516228","display_name":"Word error rate","level":2,"score":0.44845008850097656},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37374770641326904},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37264543771743774},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.26630735397338867},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.25012868642807007},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.15729162096977234},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0709581971168518},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.06760227680206299},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"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/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"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":"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":2,"locations":[{"id":"doi:10.1093/bioinformatics/btw322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/807/25147945/btw322.pdf","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:27259539","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27259539","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":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/6/807/25147945/btw322.pdf","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"},"sustainable_development_goals":[{"score":0.4099999964237213,"id":"https://metadata.un.org/sdg/6","display_name":"Clean water and sanitation"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2339835622.pdf","grobid_xml":"https://content.openalex.org/works/W2339835622.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W125120570","https://openalex.org/W178407265","https://openalex.org/W1647671624","https://openalex.org/W1854448698","https://openalex.org/W1969435169","https://openalex.org/W1982579644","https://openalex.org/W1983476363","https://openalex.org/W2001528758","https://openalex.org/W2012010763","https://openalex.org/W2039156006","https://openalex.org/W2061475625","https://openalex.org/W2074735241","https://openalex.org/W2121729186","https://openalex.org/W2125021618","https://openalex.org/W2135764410","https://openalex.org/W2142901448","https://openalex.org/W2142927000","https://openalex.org/W2143518993","https://openalex.org/W2148236038","https://openalex.org/W2160225487","https://openalex.org/W2167082268","https://openalex.org/W2173776306","https://openalex.org/W4205855417","https://openalex.org/W6636915900","https://openalex.org/W6682059725"],"related_works":["https://openalex.org/W2256570403","https://openalex.org/W2074156223","https://openalex.org/W2103246366","https://openalex.org/W2901653204","https://openalex.org/W2102526470","https://openalex.org/W4378447789","https://openalex.org/W2613659923","https://openalex.org/W3207557903","https://openalex.org/W2230388126","https://openalex.org/W4285192699"],"abstract_inverted_index":{"Motivation:":[0],"To":[1],"attain":[2],"acceptable":[3],"sample":[4,125],"misassignment":[5,126],"rates,":[6],"current":[7],"approaches":[8],"to":[9,37,139],"multiplex":[10,45,87,117],"single-molecule":[11,88],"real-time":[12,89],"sequencing":[13,67,148],"require":[14],"upstream":[15],"quality":[16],"improvement,":[17],"which":[18],"is":[19],"obtained":[20],"from":[21],"multiple":[22],"passes":[23],"over":[24],"the":[25,31,40,53,95,109,133,147],"sequenced":[26],"insert":[27],"and":[28,78,81,136,151,160,170],"significantly":[29],"reduces":[30],"effective":[32],"read":[33,42],"length.":[34],"In":[35],"order":[36,110],"fully":[38],"exploit":[39],"raw":[41],"length":[43],"on":[44,94],"applications,":[46],"robust":[47],"barcodes":[48,68,98,115,169],"capable":[49],"of":[50,75,97,111,121,168],"dealing":[51],"with":[52,142,165],"full":[54],"single-pass":[55,101],"error":[56,106],"rates":[57,107],"are":[58,82,137,174],"needed.":[59],"Results:":[60],"We":[61],"present":[62],"a":[63,72],"method":[64],"for":[65,84,99,155],"designing":[66],"that":[69],"can":[70,116],"withstand":[71],"large":[73],"number":[74],"insertion,":[76],"deletion":[77],"substitution":[79],"errors":[80],"suitable":[83],"use":[85],"in":[86,108],"sequencing.":[90],"The":[91,113],"manuscript":[92],"focuses":[93],"design":[96],"full-length":[100],"reads,":[102,163,173],"impaired":[103],"by":[104,146],"challenging":[105],"11%.":[112],"proposed":[114],"hundreds":[118],"or":[119],"thousands":[120],"samples":[122],"while":[123],"achieving":[124],"probabilities":[127],"as":[128,130],"low":[129],"10-7":[131],"under":[132],"above":[134],"conditions,":[135],"designed":[138],"be":[140],"compatible":[141],"chemical":[143],"constraints":[144],"imposed":[145],"process.":[149],"Availability":[150],"Implementation:":[152],"Software":[153],"tools":[154],"constructing":[156],"watermark":[157],"barcode":[158],"sets":[159,167],"demultiplexing":[161],"barcoded":[162,172],"together":[164],"example":[166],"synthetic":[171],"freely":[175],"available":[176],"at":[177],"www.cifasis-conicet.gov.ar/ezpeleta/NS-watermark":[178],".":[179],"Contact:":[180],"ezpeleta@cifasis-conicet.gov.ar.":[181]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
