{"id":"https://openalex.org/W4391099685","doi":"https://doi.org/10.1186/s13015-024-00251-9","title":"Fulgor: a fast and compact k-mer index for large-scale matching and color queries","display_name":"Fulgor: a fast and compact k-mer index for large-scale matching and color queries","publication_year":2024,"publication_date":"2024-01-22","ids":{"openalex":"https://openalex.org/W4391099685","doi":"https://doi.org/10.1186/s13015-024-00251-9","pmid":"https://pubmed.ncbi.nlm.nih.gov/38254124"},"language":"en","primary_location":{"id":"doi:10.1186/s13015-024-00251-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-024-00251-9","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-024-00251-9","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-024-00251-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001911878","display_name":"Jason Fan","orcid":"https://orcid.org/0000-0001-7617-4814"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jason Fan","raw_affiliation_strings":["Department of Computer Science, University of Maryland, College Park, MD, 20742, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072999292","display_name":"Jamshed Khan","orcid":"https://orcid.org/0000-0002-5129-9749"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jamshed Khan","raw_affiliation_strings":["Department of Computer Science, University of Maryland, College Park, MD, 20742, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040740178","display_name":"Noor Singh","orcid":"https://orcid.org/0000-0003-3721-2157"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Noor Pratap Singh","raw_affiliation_strings":["Department of Computer Science, University of Maryland, College Park, MD, 20742, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010860687","display_name":"Giulio Ermanno Pibiri","orcid":"https://orcid.org/0000-0003-0724-7092"},"institutions":[{"id":"https://openalex.org/I122991210","display_name":"Istituto di Scienza e Tecnologie dell'Informazione \"Alessandro Faedo\"","ror":"https://ror.org/05kacka20","country_code":"IT","type":"facility","lineage":["https://openalex.org/I122991210","https://openalex.org/I4210155236"]},{"id":"https://openalex.org/I149461666","display_name":"Ca' Foscari University of Venice","ror":"https://ror.org/04yzxz566","country_code":"IT","type":"education","lineage":["https://openalex.org/I149461666"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giulio Ermanno Pibiri","raw_affiliation_strings":["DAIS, Ca' Foscari University of Venice, Venice, Italy","ISTI-CNR, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DAIS, Ca' Foscari University of Venice, Venice, Italy","institution_ids":["https://openalex.org/I149461666"]},{"raw_affiliation_string":"ISTI-CNR, Pisa, Italy","institution_ids":["https://openalex.org/I122991210"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014584023","display_name":"Rob Patro","orcid":"https://orcid.org/0000-0001-8463-1675"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Rob Patro","raw_affiliation_strings":["Department of Computer Science, University of Maryland, College Park, MD, 20742, USA. rob@cs.umd.edu","Department of Computer Science, University of Maryland, College Park, MD, 20742, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, 20742, USA. rob@cs.umd.edu","institution_ids":["https://openalex.org/I66946132"]},{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, 20742, USA","institution_ids":["https://openalex.org/I66946132"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5014584023"],"corresponding_institution_ids":["https://openalex.org/I66946132"],"apc_list":{"value":2290,"currency":"USD","value_usd":2290},"apc_paid":{"value":2290,"currency":"USD","value_usd":2290},"fwci":6.0082,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.97606482,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"19","issue":"1","first_page":"3","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10627","display_name":"Advanced Image and Video Retrieval Techniques","score":0.984499990940094,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10627","display_name":"Advanced Image and Video Retrieval Techniques","score":0.984499990940094,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T11269","display_name":"Algorithms and Data Compression","score":0.9815000295639038,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10824","display_name":"Image Retrieval and Classification Techniques","score":0.9659000039100647,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7121170163154602},{"id":"https://openalex.org/keywords/index","display_name":"Index (typography)","score":0.6989073753356934},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.6609740257263184},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.6414254307746887},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4882197678089142},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.47771430015563965},{"id":"https://openalex.org/keywords/cartography","display_name":"Cartography","score":0.23000353574752808},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.20311585068702698},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.18550819158554077},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.17364245653152466},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.12973320484161377}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7121170163154602},{"id":"https://openalex.org/C2777382242","wikidata":"https://www.wikidata.org/wiki/Q6017816","display_name":"Index (typography)","level":2,"score":0.6989073753356934},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.6609740257263184},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.6414254307746887},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4882197678089142},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.47771430015563965},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.23000353574752808},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.20311585068702698},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.18550819158554077},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.17364245653152466},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.12973320484161377}],"mesh":[],"locations_count":10,"locations":[{"id":"doi:10.1186/s13015-024-00251-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-024-00251-9","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-024-00251-9","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},{"id":"pmid:38254124","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38254124","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:drops-oai.dagstuhl.de:18644","is_oa":true,"landing_page_url":"https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2023.18","pdf_url":"https://drops.dagstuhl.de/storage/00lipics/lipics-vol273-wabi2023/LIPIcs.WABI.2023.18/LIPIcs.WABI.2023.18.pdf","source":{"id":"https://openalex.org/S4377196569","display_name":"DROPS (Schloss Dagstuhl \u2013 Leibniz Center for Informatics)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2799853480","host_organization_name":"Schloss Dagstuhl \u2013 Leibniz Center for Informatics","host_organization_lineage":["https://openalex.org/I2799853480"],"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":"","raw_type":"InProceedings"},{"id":"pmh:oai:iris.unive.it:10278/5034712","is_oa":true,"landing_page_url":"https://hdl.handle.net/10278/5034712","pdf_url":"https://iris.unive.it/bitstream/10278/5034712/1/WABI2023.pdf","source":{"id":"https://openalex.org/S4306402336","display_name":"ARCA (Universit\u00e0 Ca' Foscari Venezia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149461666","host_organization_name":"Ca' Foscari University of Venice","host_organization_lineage":["https://openalex.org/I149461666"],"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":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:iris.unive.it:10278/5048982","is_oa":true,"landing_page_url":"https://hdl.handle.net/10278/5048982","pdf_url":"https://iris.unive.it/bitstream/10278/5048982/1/ALGOMB2024.pdf","source":{"id":"https://openalex.org/S4306402336","display_name":"ARCA (Universit\u00e0 Ca' Foscari Venezia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149461666","host_organization_name":"Ca' Foscari University of Venice","host_organization_lineage":["https://openalex.org/I149461666"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10810250","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10810250","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10810250/pdf/13015_2024_Article_251.pdf","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":"Algorithms Mol Biol","raw_type":"Text"},{"id":"pmh:oai:dnet:people______::c7ecc31efa7d0197ca2bd0630c58e6d0","is_oa":true,"landing_page_url":"https://openportal.isti.cnr.it/doc?id=people______::c7ecc31efa7d0197ca2bd0630c58e6d0","pdf_url":null,"source":{"id":"https://openalex.org/S7407055261","display_name":"ISTI Open Portal","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms for molecular biology 19 (2024). doi:10.1186/s13015-024-00251-9","raw_type":"http://purl.org/coar/resource_type/c_6501"},{"id":"pmh:oai:doaj.org/article:edf66e1b8cdf44abb9a00887e9b5d8c5","is_oa":true,"landing_page_url":"https://doaj.org/article/edf66e1b8cdf44abb9a00887e9b5d8c5","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":"Algorithms for Molecular Biology, Vol 19, Iss 1, Pp 1-21 (2024)","raw_type":"article"},{"id":"pmh:oai:it.cnr:prodotti:492117","is_oa":true,"landing_page_url":"http://www.cnr.it/prodotto/i/492117","pdf_url":null,"source":{"id":"https://openalex.org/S7407055101","display_name":"CNR ExploRA","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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"info:cnr-pdr/source/autori:Fan J.; Khan J.; Pratap Singh N.; Pibiri G.E.; Patro R./titolo:Fulgor: a fast and compact k-mer index for large-scale matching and color queries/doi:10.1186%2Fs13015-024-00251-9/rivista:Algorithms for molecular biology/anno:2024/pagina_da:/pagina_a:/intervallo_pagine:/volume:19","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.4230/lipics.wabi.2023.18","is_oa":true,"landing_page_url":"https://doi.org/10.4230/lipics.wabi.2023.18","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"ConferencePaper"}],"best_oa_location":{"id":"doi:10.1186/s13015-024-00251-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-024-00251-9","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-024-00251-9","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2324004137","display_name":null,"funder_award_id":"R01HG009937","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3146337093","display_name":"CSR: Medium: Approximate Membership Query Data Structures in Computational Biology and Storage","funder_award_id":"1763680","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3184792579","display_name":null,"funder_award_id":"CCF-1750472","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G407730097","display_name":null,"funder_award_id":"CCF-1750472","funder_id":"https://openalex.org/F4320337387","funder_display_name":"Division of Computing and Communication Foundations"},{"id":"https://openalex.org/G5209519694","display_name":null,"funder_award_id":"DGE-1840340","funder_id":"https://openalex.org/F4320334571","funder_display_name":"Directorate for STEM Education"},{"id":"https://openalex.org/G5762167578","display_name":"CAREER: A Comprehensive and Lightweight Framework for Transcriptome Analysis","funder_award_id":"1750472","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6493806911","display_name":"Extreme Food Risk Analytics","funder_award_id":"101093026","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6608149694","display_name":"Graduate Research Fellowship Program (GRFP)","funder_award_id":"1840340","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6624895376","display_name":null,"funder_award_id":"DGE-1840340","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6785428991","display_name":null,"funder_award_id":"CNS-1763680","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7774246832","display_name":null,"funder_award_id":"101093026","funder_id":"https://openalex.org/F4320334322","funder_display_name":"HORIZON EUROPE Framework Programme"},{"id":"https://openalex.org/G8518319274","display_name":null,"funder_award_id":"R01 HG009937","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320334322","display_name":"HORIZON EUROPE Framework Programme","ror":null},{"id":"https://openalex.org/F4320334571","display_name":"Directorate for STEM Education","ror":null},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337387","display_name":"Division of Computing and Communication Foundations","ror":"https://ror.org/01mng8331"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4391099685.pdf"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W17958277","https://openalex.org/W2003347102","https://openalex.org/W2055043387","https://openalex.org/W2057223122","https://openalex.org/W2089455813","https://openalex.org/W2128777897","https://openalex.org/W2138662031","https://openalex.org/W2144560237","https://openalex.org/W2145195191","https://openalex.org/W2149204588","https://openalex.org/W2159954944","https://openalex.org/W2323326409","https://openalex.org/W2604113568","https://openalex.org/W2949087252","https://openalex.org/W2952152744","https://openalex.org/W2955167895","https://openalex.org/W2961234535","https://openalex.org/W2963158913","https://openalex.org/W2963629592","https://openalex.org/W2979522844","https://openalex.org/W2990618091","https://openalex.org/W2998284004","https://openalex.org/W3003180447","https://openalex.org/W3011785159","https://openalex.org/W3083852019","https://openalex.org/W3085875665","https://openalex.org/W3112768174","https://openalex.org/W3113074526","https://openalex.org/W3134947292","https://openalex.org/W3156632946","https://openalex.org/W3162362910","https://openalex.org/W3178314485","https://openalex.org/W3186698701","https://openalex.org/W3210926305","https://openalex.org/W3212599762","https://openalex.org/W4220812447","https://openalex.org/W4220999759","https://openalex.org/W4225502295","https://openalex.org/W4281396198","https://openalex.org/W4282946044","https://openalex.org/W4295087956","https://openalex.org/W4313261720","https://openalex.org/W4362499537","https://openalex.org/W4376602515","https://openalex.org/W4378783302","https://openalex.org/W4382632370","https://openalex.org/W4385245730"],"related_works":["https://openalex.org/W1972035260","https://openalex.org/W2936184523","https://openalex.org/W4301594054","https://openalex.org/W2794488505","https://openalex.org/W4399573406","https://openalex.org/W4386926693","https://openalex.org/W4241210941","https://openalex.org/W3125889879","https://openalex.org/W4244035922","https://openalex.org/W1976828796"],"abstract_inverted_index":{"The":[0,121],"problem":[1,61],"of":[2,9,45,52,63,71,112,127,151,153,173,244,259,278],"sequence":[3],"identification":[4],"or":[5,155],"matching-determining":[6],"the":[7,42,49,53,68,73,110,128,133,148,158,163,171,174,199,219,242],"subset":[8],"reference":[10,54,74],"sequences":[11],"from":[12,176],"a":[13,21,56,77,113,117,145,230,276],"given":[14],"collection":[15,75,277],"that":[16,80,130],"are":[17,139,160],"likely":[18],"to":[19,41,59,83,92,178,240,253,271,298],"contain":[20],"short,":[22],"queried":[23],"nucleotide":[24],"sequence-is":[25],"relevant":[26],"for":[27,170,216,275,289],"many":[28],"important":[29],"tasks":[30],"in":[31,132,144,162,165,181,198,229,257],"Computational":[32],"Biology,":[33],"such":[34,46],"as":[35,109,182,184,287],"metagenomics":[36],"and":[37,48,89,234,292],"pangenome":[38],"analysis.":[39],"Due":[40],"complex":[43],"nature":[44],"analyses":[47],"large":[50,93],"scale":[51],"collections":[55],"resource-efficient":[57],"solution":[58],"this":[60,97,208],"is":[62,81,196,283,293],"utmost":[64],"importance.":[65],"This":[66],"poses":[67],"threefold":[69],"challenge":[70],"representing":[72],"with":[76,116,201,210],"data":[78],"structure":[79],"efficient":[82,102],"query,":[84],"has":[85],"light":[86],"memory":[87],"usage,":[88],"scales":[90],"well":[91],"collections.":[94],"To":[95],"solve":[96],"problem,":[98],"we":[99],"describe":[100],"an":[101,236],"colored":[103,134],"de":[104,136],"Bruijn":[105,137],"graph":[106,138],"index,":[107],"arising":[108],"combination":[111],"k-mer":[114],"dictionary":[115,164],"compressed":[118],"inverted":[119],"index.":[120],"proposed":[122],"index":[123,200,220,260],"takes":[124],"full":[125],"advantage":[126],"fact":[129],"unitigs":[131,159],"compacted":[135],"monochromatic":[140],"(i.e.,":[141],"all":[142],"k-mers":[143,177],"unitig":[146,195],"have":[147],"same":[149],"set":[150],"references":[152],"origin,":[154],"color).":[156],"Specifically,":[157],"kept":[161],"color":[166,193,290],"order,":[167],"thereby":[168],"allowing":[169],"encoding":[172],"map":[175],"their":[179],"colors":[180],"little":[183],"1":[185],"+":[186],"o(1)":[187],"bits":[188],"per":[189,194],"unitig.":[190],"Hence,":[191],"one":[192],"stored":[197],"almost":[202],"no":[203],"space/time":[204],"overhead.":[205],"By":[206],"combining":[207],"property":[209],"simple":[211],"but":[212],"effective":[213],"compression":[214],"methods":[215,228],"integer":[217],"lists,":[218],"achieves":[221],"very":[222],"small":[223],"space.":[224],"We":[225],"implement":[226],"these":[227],"tool":[231,246],"called":[232],"Fulgor,":[233],"conduct":[235],"extensive":[237],"experimental":[238],"analysis":[239],"demonstrate":[241],"improvement":[243],"our":[245],"over":[247],"previous":[248],"solutions.":[249],"For":[250],"example,":[251],"compared":[252],"Themisto-the":[254],"strongest":[255],"competitor":[256],"terms":[258],"space":[261,269,274],"vs.":[262],"query":[263],"time":[264],"trade-off-Fulgor":[265],"requires":[266],"significantly":[267],"less":[268,273],"(up":[270],"43%":[272],"150,000":[279],"Salmonella":[280],"enterica":[281],"genomes),":[282],"at":[284],"least":[285],"twice":[286],"fast":[288],"queries,":[291],"2-6[Formula:":[294],"see":[295],"text]":[296],"faster":[297],"construct.":[299]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":20},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}
