{"id":"https://openalex.org/W6949962018","doi":"https://doi.org/10.5281/zenodo.4313885","title":"SequencErr Supplementary Data and Codes","display_name":"SequencErr Supplementary Data and Codes","publication_year":2020,"publication_date":"2020-12-09","ids":{"openalex":"https://openalex.org/W6949962018","doi":"https://doi.org/10.5281/zenodo.4313885","mag":"3205152105"},"language":"en","primary_location":{"id":"pmh:oai:zenodo.org:4313886","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/4313886","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":"","raw_type":"software"},"volume":null,"type":"software","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://zenodo.org/record/4313886","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102886858","display_name":"Eric M. Davis","orcid":"https://orcid.org/0000-0002-4012-2315","observed_orcids":["https://orcid.org/0000-0002-4012-2315"]},"institutions":[{"id":"https://openalex.org/I1313298211","display_name":"St. Jude Children's Research Hospital","ror":"https://ror.org/02r3e0967","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1313298211","https://openalex.org/I2802152183"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Davis, Eric","raw_affiliation_strings":["St. Jude Children's Research Hospital"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"St. Jude Children's Research Hospital","institution_ids":["https://openalex.org/I1313298211"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084555975","display_name":"Pandurang S. Kolekar","orcid":"https://orcid.org/0000-0003-0044-0076","observed_orcids":["https://orcid.org/0000-0003-0044-0076"]},"institutions":[{"id":"https://openalex.org/I1313298211","display_name":"St. Jude Children's Research Hospital","ror":"https://ror.org/02r3e0967","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1313298211","https://openalex.org/I2802152183"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kolekar, Pandurang","raw_affiliation_strings":["St. Jude Children's Research Hospital"],"raw_orcid":"https://orcid.org/0000-0003-0044-0076","affiliations":[{"raw_affiliation_string":"St. Jude Children's Research Hospital","institution_ids":["https://openalex.org/I1313298211"]}]},{"author_position":"last","author":{"id":null,"display_name":"Ma, Xiaotu","orcid":"https://orcid.org/0000-0002-6233-2145","observed_orcids":["https://orcid.org/0000-0002-6233-2145"]},"institutions":[{"id":"https://openalex.org/I1313298211","display_name":"St. Jude Children's Research Hospital","ror":"https://ror.org/02r3e0967","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1313298211","https://openalex.org/I2802152183"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ma, Xiaotu","raw_affiliation_strings":["St. Jude Children's Research Hospital"],"raw_orcid":"https://orcid.org/0000-0002-6233-2145","affiliations":[{"raw_affiliation_string":"St. Jude Children's Research Hospital","institution_ids":["https://openalex.org/I1313298211"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I1313298211"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":true,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.001500000013038516,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.0006000000284984708,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/next-generation-sequencing","display_name":"next-generation sequencing","score":0.6809999942779541},{"id":"https://openalex.org/keywords/sequencing-accuracy","display_name":"sequencing accuracy","score":0.7559999823570251},{"id":"https://openalex.org/keywords/error-suppression","display_name":"error suppression","score":0.8230000138282776},{"id":"https://openalex.org/keywords/hiseq","display_name":"HiSeq","score":0.621999979019165},{"id":"https://openalex.org/keywords/single-cell-sequencing","display_name":"single-cell sequencing","score":0.4350000023841858}],"concepts":[{"id":"https://openalex.org/C70712619","wikidata":"https://www.wikidata.org/wiki/Q908889","display_name":"DNA sequencer","level":4,"score":0.7882999777793884},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6855999827384949},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.5446000099182129},{"id":"https://openalex.org/C103088060","wikidata":"https://www.wikidata.org/wiki/Q1062839","display_name":"Error detection and correction","level":2,"score":0.522599995136261},{"id":"https://openalex.org/C40969351","wikidata":"https://www.wikidata.org/wiki/Q3516228","display_name":"Word error rate","level":2,"score":0.4867999851703644},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.47119998931884766},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4375},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.3824999928474426},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.3698999881744385},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.35440000891685486},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.34470000863075256},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.3165999948978424},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.31220000982284546},{"id":"https://openalex.org/C739882","wikidata":"https://www.wikidata.org/wiki/Q3560506","display_name":"Anomaly detection","level":2,"score":0.305400013923645},{"id":"https://openalex.org/C42058472","wikidata":"https://www.wikidata.org/wiki/Q810214","display_name":"Base (topology)","level":2,"score":0.2978000044822693},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.29280000925064087},{"id":"https://openalex.org/C160798450","wikidata":"https://www.wikidata.org/wiki/Q4230870","display_name":"Concordance","level":2,"score":0.28189998865127563},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.27790001034736633},{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.26930001378059387},{"id":"https://openalex.org/C19619285","wikidata":"https://www.wikidata.org/wiki/Q196372","display_name":"Observational error","level":2,"score":0.2540000081062317},{"id":"https://openalex.org/C3018824978","wikidata":"https://www.wikidata.org/wiki/Q2894891","display_name":"Error analysis","level":2,"score":0.2517000138759613}],"mesh":[],"locations_count":6,"locations":[{"id":"pmh:oai:zenodo.org:4313886","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/4313886","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":"","raw_type":"software"},{"id":"pmh:oai:zenodo.org:4313906","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/4313906","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":"","raw_type":"software"},{"id":"doi:10.5281/zenodo.4313885","doi":"https://doi.org/10.5281/zenodo.4313885","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.4313885","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Software"},{"id":"doi:10.5281/zenodo.4313886","doi":"https://doi.org/10.5281/zenodo.4313886","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.4313886","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Software"},{"id":"doi:10.5281/zenodo.4313906","doi":"https://doi.org/10.5281/zenodo.4313906","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.4313906","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Software"},{"id":"mag:3205152105","doi":null,"is_oa":false,"landing_page_url":"https://zenodo.org/record/4313906","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:zenodo.org:4313886","doi":null,"is_oa":true,"landing_page_url":"https://zenodo.org/record/4313886","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":"","raw_type":"software"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W6912448672","https://openalex.org/W3122016707","https://openalex.org/W4394509446","https://openalex.org/W4394217666","https://openalex.org/W6939678720","https://openalex.org/W6977038549","https://openalex.org/W4394386431","https://openalex.org/W4394442638","https://openalex.org/W4394346670","https://openalex.org/W4394406238"],"abstract_inverted_index":{"SequencErr:":[0],"measuring":[1,62],"and":[2,12,71,97,101,124,128,161,193,197],"suppressing":[3],"sequencer":[4,88,195,201],"errors":[5,26,181,202],"in":[6,29,65,83,120,183,203],"next-generation":[7,37],"sequencing":[8,31,38,140,159,169,180],"data":[9],"Supplementary":[10],"Data":[11],"Codes":[13],"to":[14,22,57,91,190,198,215],"generate":[15],"figures":[16],"There":[17],"is":[18,34],"currently":[19],"no":[20],"method":[21,186],"precisely":[23],"measure":[24],"the":[25,30,43,66,87,112,121,177],"that":[27,150,162],"occur":[28],"instrument,":[32],"which":[33],"critical":[35],"for":[36,218],"applications":[39],"aimed":[40],"at":[41,133],"discovering":[42],"genetic":[44],"makeup":[45],"of":[46,75,99,103,126,164,220],"heterogeneous":[47],"cellular":[48],"populations.":[49],"We":[50],"propose":[51],"a":[52,141],"novel":[53,174],"computational":[54],"method,":[55],"SequencErr,":[56],"address":[58],"this":[59],"challenge":[60],"by":[61],"base":[63],"concordance":[64],"overlapping":[67],"region":[68],"between":[69],"forward":[70],"reverse":[72],"reads.":[73],"Analysis":[74],"3,777":[76],"public":[77],"datasets":[78],"from":[79],"75":[80],"research":[81],"institutions":[82],"18":[84],"countries":[85],"revealed":[86,173],"error":[89,107,116,154],"rate":[90],"be":[92,188],"~10":[93],"per":[94],"million":[95],"(pm)":[96],"1.4%":[98],"sequencers":[100,151],"2.7%":[102],"flow":[104,113,130],"cells":[105,131],"have":[106,132,156],"rates":[108,117,155],">100":[109],"pm.":[110],"At":[111],"cell":[114],"level,":[115],"are":[118],"elevated":[119],"bottom":[122],"surfaces":[123],">90%":[125],"HiSeq":[127],"NovaSeq":[129],"least":[134],"one":[135],"outlier":[136,165],"error-prone":[137,166],"tiles.":[138],"By":[139],"common":[142],"DNA":[143,179],"library":[144],"on":[145,207],"different":[146],"sequencers,":[147],"we":[148],"demonstrate":[149],"with":[152],"high":[153],"reduced":[157],"overall":[158],"accuracy,":[160,196],"removal":[163],"tiles":[167],"improves":[168],"accuracy.":[170],"Our":[171,185],"study":[172],"insights":[175],"into":[176],"nature":[178],"incurred":[182],"sequencers.":[184],"can":[187],"used":[189],"assess,":[191],"calibrate,":[192],"monitor":[194],"computationally":[199],"suppress":[200],"existing":[204],"datasets.":[205],"SequencErr":[206],"St.":[208],"Jude":[209],"Cloud":[210],"https://platform.stjude.cloud/workflows/sequencerr":[211],"USAGE":[212],"Please":[213],"refer":[214],"README":[216],"file(s)":[217],"details":[219],"usage":[221]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2026-10-13T10:08:12.033832","created_date":"2025-10-10T00:00:00"}
