{"id":"https://openalex.org/W2905587158","doi":"https://doi.org/10.1186/s12859-018-2124-3","title":"CarrierSeq: a sequence analysis workflow for low-input nanopore sequencing","display_name":"CarrierSeq: a sequence analysis workflow for low-input nanopore sequencing","publication_year":2018,"publication_date":"2018-03-27","ids":{"openalex":"https://openalex.org/W2905587158","doi":"https://doi.org/10.1186/s12859-018-2124-3","mag":"2905587158","pmid":"https://pubmed.ncbi.nlm.nih.gov/29587645"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2124-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2124-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2124-3","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":"book-chapter","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2124-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051506737","display_name":"Angel Mojarro","orcid":"https://orcid.org/0000-0003-4547-4747"},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Angel Mojarro","raw_affiliation_strings":["Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA. mojarro@mit.edu","Department of Earth, Atmospheric, and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA. mojarro@mit.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Earth, Atmospheric, and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA#TAB#","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029533555","display_name":"Julie Hachey","orcid":null},"institutions":[{"id":"https://openalex.org/I4210134838","display_name":"ReadCoor (United States)","ror":"https://ror.org/02rzhqp10","country_code":"US","type":"company","lineage":["https://openalex.org/I4210134838"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Julie Hachey","raw_affiliation_strings":["ReadCoor, Cambridge, MA, USA","ReadCoor, Cambridge, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ReadCoor, Cambridge, MA, USA","institution_ids":["https://openalex.org/I4210134838"]},{"raw_affiliation_string":"ReadCoor, Cambridge, USA","institution_ids":["https://openalex.org/I4210134838"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066998461","display_name":"Gary Ruvkun","orcid":"https://orcid.org/0000-0002-7473-8484"},"institutions":[{"id":"https://openalex.org/I4210087915","display_name":"Massachusetts General Hospital","ror":"https://ror.org/002pd6e78","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210087915","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gary Ruvkun","raw_affiliation_strings":["Department of Molecular Biology, Massachusetts General Hospital, Boston, MA, USA","Department of Molecular Biology, Massachusetts General Hospital, Boston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology, Massachusetts General Hospital, Boston, MA, USA","institution_ids":["https://openalex.org/I4210087915"]},{"raw_affiliation_string":"Department of Molecular Biology, Massachusetts General Hospital, Boston, USA","institution_ids":["https://openalex.org/I4210087915"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018571347","display_name":"M. T. Zuber","orcid":"https://orcid.org/0000-0003-2652-8017"},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Maria T. Zuber","raw_affiliation_strings":["Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA","Department of Earth, Atmospheric, and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Department of Earth, Atmospheric, and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA#TAB#","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067356438","display_name":"Christopher E. Carr","orcid":"https://orcid.org/0000-0002-7946-5622"},"institutions":[{"id":"https://openalex.org/I4210087915","display_name":"Massachusetts General Hospital","ror":"https://ror.org/002pd6e78","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210087915","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher E. Carr","raw_affiliation_strings":["Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA","Department of Molecular Biology, Massachusetts General Hospital, Boston, MA, USA","Department of Molecular Biology, Massachusetts General Hospital, Boston, USA","Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, 77 Massachusetts Ave, E25-610, Cambridge, MA, 02139, USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"Department of Molecular Biology, Massachusetts General Hospital, Boston, MA, USA","institution_ids":["https://openalex.org/I4210087915"]},{"raw_affiliation_string":"Department of Molecular Biology, Massachusetts General Hospital, Boston, USA","institution_ids":["https://openalex.org/I4210087915"]},{"raw_affiliation_string":"Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, USA","institution_ids":["https://openalex.org/I63966007"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5051506737"],"corresponding_institution_ids":["https://openalex.org/I63966007"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.12248942,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"19","issue":"1","first_page":"108","last_page":"108"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5460000038146973,"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":0.5460000038146973,"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/T12012","display_name":"Diatoms and Algae Research","score":0.14499999582767487,"subfield":{"id":"https://openalex.org/subfields/2502","display_name":"Biomaterials"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.07609999924898148,"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/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.9017468690872192},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.6840657591819763},{"id":"https://openalex.org/keywords/nanopore","display_name":"Nanopore","score":0.6601310968399048},{"id":"https://openalex.org/keywords/minion","display_name":"Minion","score":0.5562030076980591},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5435119271278381},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.4965251088142395},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.49533405900001526},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.48555228114128113},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4484647214412689},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.44127726554870605},{"id":"https://openalex.org/keywords/genomic-dna","display_name":"genomic DNA","score":0.4351937174797058},{"id":"https://openalex.org/keywords/hybrid-genome-assembly","display_name":"Hybrid genome assembly","score":0.4318326711654663},{"id":"https://openalex.org/keywords/sequence-analysis","display_name":"Sequence analysis","score":0.43144312500953674},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.41723161935806274},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.3960508406162262},{"id":"https://openalex.org/keywords/reference-genome","display_name":"Reference genome","score":0.3309134244918823},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.32307904958724976},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.3168698847293854},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14855104684829712},{"id":"https://openalex.org/keywords/nanotechnology","display_name":"Nanotechnology","score":0.13625648617744446},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.08435386419296265},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.08253210783004761}],"concepts":[{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.9017468690872192},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.6840657591819763},{"id":"https://openalex.org/C141795571","wikidata":"https://www.wikidata.org/wiki/Q580942","display_name":"Nanopore","level":2,"score":0.6601310968399048},{"id":"https://openalex.org/C2779927696","wikidata":"https://www.wikidata.org/wiki/Q6865654","display_name":"Minion","level":5,"score":0.5562030076980591},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5435119271278381},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.4965251088142395},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.49533405900001526},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.48555228114128113},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4484647214412689},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.44127726554870605},{"id":"https://openalex.org/C17757408","wikidata":"https://www.wikidata.org/wiki/Q4135516","display_name":"genomic DNA","level":3,"score":0.4351937174797058},{"id":"https://openalex.org/C113425843","wikidata":"https://www.wikidata.org/wiki/Q5953213","display_name":"Hybrid genome assembly","level":5,"score":0.4318326711654663},{"id":"https://openalex.org/C61053724","wikidata":"https://www.wikidata.org/wiki/Q1154615","display_name":"Sequence analysis","level":3,"score":0.43144312500953674},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.41723161935806274},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.3960508406162262},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.3309134244918823},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32307904958724976},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.3168698847293854},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14855104684829712},{"id":"https://openalex.org/C171250308","wikidata":"https://www.wikidata.org/wiki/Q11468","display_name":"Nanotechnology","level":1,"score":0.13625648617744446},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.08435386419296265},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.08253210783004761},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","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":"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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058608","descriptor_name":"Nanopores","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-018-2124-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2124-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2124-3","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:29587645","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29587645","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:doaj.org/article:0a73477829ce44f9a673d8d32d9c51ef","is_oa":true,"landing_page_url":"https://doaj.org/article/0a73477829ce44f9a673d8d32d9c51ef","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss 1, Pp 1-4 (2018)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:5872496","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5872496","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"mag:2905587158","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2124-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2124-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2124-3","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":[{"id":"https://metadata.un.org/sdg/15","score":0.5199999809265137,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G1901813023","display_name":null,"funder_award_id":"NNX15AF85G","funder_id":"https://openalex.org/F4320306101","funder_display_name":"National Aeronautics and Space Administration"}],"funders":[{"id":"https://openalex.org/F4320306101","display_name":"National Aeronautics and Space Administration","ror":"https://ror.org/027ka1x80"},{"id":"https://openalex.org/F4320312414","display_name":"Oxford Nanopore Technologies","ror":"https://ror.org/04hyfx005"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2905587158.pdf","grobid_xml":"https://content.openalex.org/works/W2905587158.grobid-xml"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1545479461","https://openalex.org/W1973862547","https://openalex.org/W2019163239","https://openalex.org/W2036962731","https://openalex.org/W2108234281","https://openalex.org/W2158698691","https://openalex.org/W2297005960","https://openalex.org/W2411304278","https://openalex.org/W2626062520","https://openalex.org/W2736111619","https://openalex.org/W3014829468"],"related_works":["https://openalex.org/W2278775919","https://openalex.org/W2952400994","https://openalex.org/W3040011956","https://openalex.org/W2912827923","https://openalex.org/W2772285106","https://openalex.org/W2588352561","https://openalex.org/W2823726405","https://openalex.org/W2847778626","https://openalex.org/W2830527083","https://openalex.org/W2182924095","https://openalex.org/W2232219090","https://openalex.org/W2959833415","https://openalex.org/W3096710907","https://openalex.org/W2929195497","https://openalex.org/W3072982014","https://openalex.org/W2091802514","https://openalex.org/W2057123325","https://openalex.org/W2956637945","https://openalex.org/W2232214289","https://openalex.org/W3002181636"],"abstract_inverted_index":{"BACKGROUND:":[0],"Long-read":[1],"nanopore":[2,34,168],"sequencing":[3,77,104,169,182],"technology":[4],"is":[5,26],"of":[6,33,108,119,128,166],"particular":[7],"significance":[8],"for":[9],"taxonomic":[10],"identification":[11],"at":[12],"or":[13,43,156],"below":[14,28],"the":[15,22,29,64,91,96,153,167],"species":[16],"level.":[17],"For":[18],"many":[19],"environmental":[20],"samples,":[21],"total":[23],"extractable":[24],"DNA":[25,61,66,115],"far":[27],"current":[30],"input":[31],"requirements":[32],"sequencing,":[35,55],"preventing":[36],"\"sample":[37],"to":[38,58,71,89,152,163,193],"sequence\"":[39],"metagenomics":[40],"from":[41,95,105,196],"low-biomass":[42],"recalcitrant":[44],"samples.":[45],"RESULTS:":[46],"Here":[47],"we":[48,136,188],"address":[49],"this":[50],"problem":[51],"by":[52,62,103,199],"employing":[53],"carrier":[54,70],"a":[56,68,85,106,117,184,190],"method":[57],"sequence":[59,86],"low-input":[60,92,203],"preparing":[63],"target":[65,93,138,155,204],"with":[67,175],"genomic":[69,97],"achieve":[72],"ideal":[73],"library":[74],"preparation":[75],"and":[76,132,144],"stoichiometry":[78],"without":[79],"amplification.":[80],"We":[81,99],"then":[82],"use":[83],"CarrierSeq,":[84],"analysis":[87],"workflow":[88],"identify":[90],"reads":[94,139,161],"carrier.":[98],"tested":[100],"CarrierSeq":[101],"experimentally":[102],"combination":[107],"0.2":[109],"ng":[110,121],"Bacillus":[111],"subtilis":[112],"ATCC":[113],"6633":[114],"in":[116],"background":[118],"1000":[120],"Enterobacteria":[122],"phage":[123],"\u03bb":[124],"DNA.":[125],"After":[126],"filtering":[127],"carrier,":[129,154],"low":[130,133],"quality,":[131],"complexity":[134],"reads,":[135,143],"detected":[137],"(B.":[140],"subtilis),":[141],"contamination":[142],"\"high":[145],"quality":[146],"noise":[147],"reads\"":[148],"(HQNRs)":[149],"not":[150],"mapping":[151],"known":[157],"lab":[158],"contaminants.":[159],"These":[160],"appear":[162],"be":[164],"artifacts":[165],"process":[170],"as":[171,183],"they":[172],"are":[173],"associated":[174],"specific":[176],"channels":[177,197],"(pores).":[178],"CONCLUSION:":[179],"By":[180],"treating":[181],"Poisson":[185],"arrival":[186],"process,":[187],"implement":[189],"statistical":[191],"test":[192],"reject":[194],"data":[195],"dominated":[198],"HQNRs":[200],"while":[201],"retaining":[202],"reads.":[205]},"counts_by_year":[],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}