{"id":"https://openalex.org/W2583024903","doi":null,"title":"LoRDEC: a tool for correcting errors in long sequencing reads","display_name":"LoRDEC: a tool for correcting errors in long sequencing reads","publication_year":2015,"publication_date":"2015-09-27","ids":{"openalex":"https://openalex.org/W2583024903","mag":"2583024903"},"language":"en","primary_location":{"id":"pmh:oai:HAL:lirmm-01224319v1","doi":null,"is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319","pdf_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319v1/file/Rivals-GCB-keynote-talk-abs-2015.pdf","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://gcb2015.cs.tu-dortmund.de","raw_type":"info:eu-repo/semantics/conferenceObject"},"volume":null,"type":"conference-paper","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319v1/file/Rivals-GCB-keynote-talk-abs-2015.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010392318","display_name":"\u00c9ric Rivals","orcid":"https://orcid.org/0000-0003-3791-3973","observed_orcids":["https://orcid.org/0000-0003-3791-3973"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Rivals, Eric","raw_affiliation_strings":["M\u00e9thodes et Algorithmes pour la Bioinformatique"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"M\u00e9thodes et Algorithmes pour la Bioinformatique","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5010392318"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.31823745,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9945999979972839,"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":0.9945999979972839,"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/T11269","display_name":"Algorithms and Data Compression","score":0.003100000089034438,"subfield":{"id":"https://openalex.org/subfields/2614","display_name":"Theoretical Computer Science"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12946","display_name":"Fractal and DNA sequence analysis","score":0.00019999999494757503,"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/long-read-error-correction","display_name":"long-read error correction","score":0.7279999852180481},{"id":"https://openalex.org/keywords/long-read-sequencing","display_name":"long-read sequencing","score":0.722000002861023},{"id":"https://openalex.org/keywords/de-bruijn-graph","display_name":"de Bruijn graph","score":0.765999972820282},{"id":"https://openalex.org/keywords/substitution-errors","display_name":"substitution errors","score":0.8029999732971191},{"id":"https://openalex.org/keywords/de-novo-assembly","display_name":"de novo assembly","score":0.6290000081062317},{"id":"https://openalex.org/keywords/genome-mapping","display_name":"genome mapping","score":0.40799999237060547}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6779470443725586},{"id":"https://openalex.org/C103088060","wikidata":"https://www.wikidata.org/wiki/Q1062839","display_name":"Error detection and correction","level":2,"score":0.5803130269050598},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.522245466709137},{"id":"https://openalex.org/C40969351","wikidata":"https://www.wikidata.org/wiki/Q3516228","display_name":"Word error rate","level":2,"score":0.4168854355812073},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3340357542037964},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.19761133193969727},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1415199637413025},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.12403532862663269},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10977378487586975}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:HAL:lirmm-01224319v1","doi":null,"is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319","pdf_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319v1/file/Rivals-GCB-keynote-talk-abs-2015.pdf","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://gcb2015.cs.tu-dortmund.de","raw_type":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:HAL:lirmm-01446431v1","doi":null,"is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01446431","pdf_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01446431v1/document","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Montpellier Omics Days, Universit\u00e9 de Montpellier, Master BCD, Feb 2016, Montpellier, France","raw_type":"info:eu-repo/semantics/conferenceObject"}],"best_oa_location":{"id":"pmh:oai:HAL:lirmm-01224319v1","doi":null,"is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319","pdf_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01224319v1/file/Rivals-GCB-keynote-talk-abs-2015.pdf","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4405252976","host_organization_name":"Centre pour la Communication Scientifique Directe","host_organization_lineage":["https://openalex.org/I4405252976"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://gcb2015.cs.tu-dortmund.de","raw_type":"info:eu-repo/semantics/conferenceObject"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2583024903.pdf","grobid_xml":"https://content.openalex.org/works/W2583024903.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2582224350","https://openalex.org/W7101012846","https://openalex.org/W2160177274","https://openalex.org/W2584458360","https://openalex.org/W2340761128","https://openalex.org/W3009972029","https://openalex.org/W3115745540","https://openalex.org/W2810974113","https://openalex.org/W2994735876","https://openalex.org/W4413997834"],"abstract_inverted_index":{"High-throughput":[0],"DNA":[1],"and":[2,13,48,57,144,164],"RNA":[3],"sequencing":[4,39],"has":[5],"become":[6],"a":[7,26,92,136,168],"routine":[8],"experiment":[9],"in":[10,16,22,80,151,161,185],"molecular":[11],"biology":[12],"life":[14],"sciences":[15],"general.":[17],"It":[18],"is":[19,127,195],"increasingly":[20],"used":[21,79],"the":[23,34,86,97,101,118,141,146,152,178],"hospital":[24],"as":[25],"key":[27],"procedure":[28],"of":[29,85,120,135,180,192],"person-alized":[30],"medicine.":[31],"Compared":[32],"to":[33,139,149],"second":[35],"generation,":[36],"third":[37],"generation":[38],"technologies":[40],"produce":[41],"longer":[42],"reads":[43,84,99,103,122,148],"with":[44,82,187],"comparatively":[45],"lower":[46],"throughput":[47],"higher":[49],"error":[50,111,182],"rate.":[51],"Those":[52],"errors":[53],"include":[54],"substitutions,":[55],"indels,":[56],"they":[58],"hinder":[59],"or":[60,68],"at":[61],"least":[62],"complicate":[63],"downstream":[64],"analysis":[65],"like":[66],"mapping":[67],"de":[69],"novo":[70],"assembly.":[71],"However,":[72],"these":[73],"long":[74,98,124,147],"read":[75,181],"data":[76],"are":[77],"often":[78],"conjunction":[81],"short":[83,102,121,142],"2nd":[87],"generation.":[88],"I":[89],"will":[90,175],"present":[91],"hybrid":[93],"strategy":[94],"for":[95],"correcting":[96],"using":[100],"that":[104,156],"we":[105],"introduced":[106],"last":[107],"year.":[108],"Unlike":[109],"existing":[110,159],"correction":[112,170],"tool,":[113],"ours,":[114],"called":[115],"LoRDEC,":[116],"avoids":[117],"alignment":[119],"on":[123,177],"reads,":[125,143],"which":[126],"computationally":[128],"very":[129],"intensive.":[130],"Instead,":[131],"it":[132],"takes":[133],"advantage":[134],"succinct":[137],"graph":[138],"represent":[140],"compares":[145],"paths":[150],"graph.":[153],"Experiments":[154],"show":[155],"LoRDEC":[157,194],"outperforms":[158],"methods":[160],"running":[162],"time":[163],"memory":[165],"while":[166],"achieving":[167],"comparable":[169],"performance.":[171],"In":[172],"conclusion,":[173],"i":[174],"comment":[176],"impact":[179],"correction.":[183],"Work":[184],"collaboration":[186],"L.":[188],"Salmela":[189],"from":[190],"University":[191],"Helsinki.":[193],"available":[196],"at:":[197],"http://www.lirmm.fr/~rivals/lordec/":[198]},"counts_by_year":[],"updated_date":"2026-11-08T12:12:28.789561","created_date":"2017-02-03T00:00:00"}
