{"id":"https://openalex.org/W7137288452","doi":"https://doi.org/10.1093/bib/bbag119","title":"Kun-peng enables scalable and accurate pan-domain metagenomic classification","display_name":"Kun-peng enables scalable and accurate pan-domain metagenomic classification","publication_year":2026,"publication_date":"2026-02-25","ids":{"openalex":"https://openalex.org/W7137288452","doi":"https://doi.org/10.1093/bib/bbag119","pmid":"https://pubmed.ncbi.nlm.nih.gov/41838875"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbag119","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag119","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbag119","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5129486011","display_name":"Qiong Chen","orcid":null},"institutions":[{"id":"https://openalex.org/I4210166576","display_name":"First Affiliated Hospital Zhejiang University","ror":"https://ror.org/05m1p5x56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166576"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qiong Chen","raw_affiliation_strings":["MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, First Affiliated Hospital, Zhejiang University School of Medicine , No. 79 Qingchun Road, Shangcheng District, Hangzhou, Zhejiang 310003 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, First Affiliated Hospital, Zhejiang University School of Medicine , No. 79 Qingchun Road, Shangcheng District, Hangzhou, Zhejiang 310003 ,","institution_ids":["https://openalex.org/I76130692","https://openalex.org/I4210166576"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103097182","display_name":"Boliang Zhang","orcid":"https://orcid.org/0009-0003-8767-340X"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Boliang Zhang","raw_affiliation_strings":["MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Chen Peng","orcid":null},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chen Peng","raw_affiliation_strings":["MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Jiajun Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiajun Huang","raw_affiliation_strings":["MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5129448773","display_name":"Zhen Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Liu","raw_affiliation_strings":["MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057437035","display_name":"Xiaotao Shen","orcid":"https://orcid.org/0000-0002-9608-9964"},"institutions":[{"id":"https://openalex.org/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Xiaotao Shen","raw_affiliation_strings":["Lee Kong Chian School of Medicine, Nanyang Technological University, 59 Nanyang Drive, Singapore 636921, Singapore; School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University , 62 Nanyang Drive, Singapore 637459 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lee Kong Chian School of Medicine, Nanyang Technological University, 59 Nanyang Drive, Singapore 636921, Singapore; School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University , 62 Nanyang Drive, Singapore 637459 ,","institution_ids":["https://openalex.org/I172675005"]}]},{"author_position":"last","author":{"id":null,"display_name":"Chao Jiang","orcid":"https://orcid.org/0000-0003-0260-7271"},"institutions":[{"id":"https://openalex.org/I192209268","display_name":"Shaoxing University","ror":"https://ror.org/0435tej63","country_code":"CN","type":"education","lineage":["https://openalex.org/I192209268"]},{"id":"https://openalex.org/I4210166576","display_name":"First Affiliated Hospital Zhejiang University","ror":"https://ror.org/05m1p5x56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166576"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chao Jiang","raw_affiliation_strings":["Center for Life Sciences, Shaoxing Institute, Zhejiang University , Building 3, Shuimuwan Science Park, Yuecheng District, Shaoxing, Zhejiang 312099 ,","MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, First Affiliated Hospital, Zhejiang University School of Medicine , No. 79 Qingchun Road, Shangcheng District, Hangzhou, Zhejiang 310003 ,"],"raw_orcid":"https://orcid.org/0000-0003-0260-7271","affiliations":[{"raw_affiliation_string":"Center for Life Sciences, Shaoxing Institute, Zhejiang University , Building 3, Shuimuwan Science Park, Yuecheng District, Shaoxing, Zhejiang 312099 ,","institution_ids":["https://openalex.org/I192209268"]},{"raw_affiliation_string":"MOE Key Laboratory of Biosystems Homeostasis & Protection, and Zhejiang Provincial Key Laboratory of Cancer Molecular Cell Biology, Life Sciences Institute, Zhejiang University , No. 866 Yuhangtang Road, Xihu District, Hangzhou, Zhejiang 310058 ,","institution_ids":["https://openalex.org/I76130692"]},{"raw_affiliation_string":"State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, First Affiliated Hospital, Zhejiang University School of Medicine , No. 79 Qingchun Road, Shangcheng District, Hangzhou, Zhejiang 310003 ,","institution_ids":["https://openalex.org/I76130692","https://openalex.org/I4210166576"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5129486011"],"corresponding_institution_ids":["https://openalex.org/I4210166576","https://openalex.org/I76130692"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":11.68,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.98113138,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"27","issue":"2","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":0.44830000400543213,"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":0.44830000400543213,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.06260000169277191,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.05570000037550926,"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/metagenomics","display_name":"Metagenomics","score":0.7638000249862671},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.748199999332428},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.7408999800682068},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7177000045776367},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.4691999852657318},{"id":"https://openalex.org/keywords/reference-database","display_name":"Reference database","score":0.36390000581741333},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.3601999878883362},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.33309999108314514}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7971000075340271},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.7638000249862671},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.748199999332428},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.7408999800682068},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7177000045776367},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5900999903678894},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.4691999852657318},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38339999318122864},{"id":"https://openalex.org/C2984717058","wikidata":"https://www.wikidata.org/wiki/Q1789476","display_name":"Reference database","level":2,"score":0.36390000581741333},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.3601999878883362},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.33309999108314514},{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.33009999990463257},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.31700000166893005},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3018999993801117},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.2906999886035919},{"id":"https://openalex.org/C97854310","wikidata":"https://www.wikidata.org/wiki/Q19541","display_name":"Search engine","level":2,"score":0.2750999927520752},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.2728999853134155},{"id":"https://openalex.org/C111335779","wikidata":"https://www.wikidata.org/wiki/Q3454686","display_name":"Reduction (mathematics)","level":2,"score":0.26840001344680786},{"id":"https://openalex.org/C149629883","wikidata":"https://www.wikidata.org/wiki/Q660926","display_name":"Fraction (chemistry)","level":2,"score":0.2653000056743622},{"id":"https://openalex.org/C81669768","wikidata":"https://www.wikidata.org/wiki/Q2359161","display_name":"Precision and recall","level":2,"score":0.2639999985694885},{"id":"https://openalex.org/C2781357197","wikidata":"https://www.wikidata.org/wiki/Q5757597","display_name":"High memory","level":2,"score":0.263700008392334},{"id":"https://openalex.org/C2989486834","wikidata":"https://www.wikidata.org/wiki/Q3808900","display_name":"True positive rate","level":2,"score":0.2565999925136566}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbag119","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag119","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41838875","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41838875","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:dr.ntu.edu.sg:10356/211181","is_oa":false,"landing_page_url":"https://hdl.handle.net/10356/211181","pdf_url":null,"source":{"id":"https://openalex.org/S4306402609","display_name":"DR-NTU (Nanyang Technological University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172675005","host_organization_name":"Nanyang Technological University","host_organization_lineage":["https://openalex.org/I172675005"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12991049","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12991049/","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbag119","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag119","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4799724167","display_name":null,"funder_award_id":"82173645","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7140936776","display_name":null,"funder_award_id":"82341109","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":38,"referenced_works":["https://openalex.org/W2055043387","https://openalex.org/W2106119366","https://openalex.org/W2345658906","https://openalex.org/W2886687368","https://openalex.org/W2891233979","https://openalex.org/W2950964375","https://openalex.org/W2951160681","https://openalex.org/W2968450569","https://openalex.org/W2983573483","https://openalex.org/W2990618091","https://openalex.org/W3003110834","https://openalex.org/W3020766009","https://openalex.org/W3046938028","https://openalex.org/W3098348207","https://openalex.org/W3106215385","https://openalex.org/W3112234114","https://openalex.org/W3119943575","https://openalex.org/W4200283292","https://openalex.org/W4220816318","https://openalex.org/W4220990048","https://openalex.org/W4225258284","https://openalex.org/W4226049303","https://openalex.org/W4307302070","https://openalex.org/W4309371047","https://openalex.org/W4310663915","https://openalex.org/W4313226277","https://openalex.org/W4321611856","https://openalex.org/W4323036397","https://openalex.org/W4385979424","https://openalex.org/W4387102728","https://openalex.org/W4388592083","https://openalex.org/W4395465130","https://openalex.org/W4396913382","https://openalex.org/W4400408660","https://openalex.org/W4401179089","https://openalex.org/W4401562739","https://openalex.org/W4403228370","https://openalex.org/W4408595832"],"related_works":[],"abstract_inverted_index":{"Comprehensive":[0],"pan-domain":[1,43,123,221,230],"metagenomic":[2,107],"classification":[3,71,118],"is":[4,207],"increasingly":[5],"constrained":[6],"by":[7,30,64,72,131,184],"the":[8,17,46,57,187,216],"memory":[9,58,157,218],"and":[10,15,36,62,68,90,113,224,228,237],"runtime":[11],"costs":[12],"of":[13,49,60,105,180,204,233],"building":[14,223],"querying":[16,63],"rapidly":[18],"expanding":[19],"reference":[20,198],"genome":[21],"space.":[22],"We":[23],"introduce":[24],"Kun-peng,":[25],"a":[26,102,120,153,169,201],"taxonomic":[27,231],"classifier":[28],"powered":[29],"an":[31],"intelligent":[32],"block-partitioned":[33],"database":[34,124,190,222],"structure":[35],"optimized":[37],"search":[38],"strategies,":[39],"enabling":[40,226],"ultra-scalable,":[41],"memory-efficient":[42],"profiling.":[44],"Using":[45],"Critical":[47],"Assessment":[48],"Metagenome":[50],"Interpretation":[51],"II":[52],"benchmark,":[53],"Kun-peng":[54,79,132,139,165,177,213],"substantially":[55],"reduces":[56],"usage":[59,158],"database-building":[61],"up":[65,73,167],"to":[66,74,152,160,168,209],"24-fold,":[67],"accelerates":[69],"sample":[70,142],"4.73-fold":[75],"compared":[76],"with":[77,83,133,146,163,191],"Kraken2.":[78,161],"achieves":[80],"competitive":[81],"accuracy":[82],"fewer":[84],"false":[85,205],"positives":[86,206],"than":[87],"Kraken2,":[88],"Centrifuger,":[89],"even":[91],"KrakenUniq,":[92],"while":[93,172],"maintaining":[94],"consistently":[95],"high":[96],"sensitivity":[97],"across":[98],"diverse":[99],"datasets.":[100,240],"In":[101],"real-world":[103],"evaluation":[104],"586":[106],"samples":[108],"spanning":[109],"air,":[110],"water,":[111],"soil,":[112],"human-associated":[114],"environments,":[115],"we":[116],"performed":[117],"using":[119],"4.3":[121],"TB":[122],"comprising":[125],"204,477":[126],"genomes,":[127],"which":[128],"was":[129],"built":[130],"only":[134],"4.1":[135],"GB":[136,148],"peak":[137,149],"memory.":[138,176],"processed":[140],"each":[141],"in":[143,156,220],"0.2-11.2":[144],"min":[145],"4.0-35.4":[147],"memory,":[150],"corresponding":[151],"54-473-fold":[154],"reduction":[155],"relative":[159],"Compared":[162],"Sylph,":[164],"achieved":[166],"46-fold":[170],"speedup":[171],"requiring":[173],"21-fold":[174],"less":[175],"classified":[178],"69.8%-94.3%":[179],"reads,":[181],"improving":[182],"coverage":[183],"20%-60%":[185],"over":[186],"standard":[188],"Kraken2":[189],"62,026":[192],"genomes.":[193],"This":[194],"improvement":[195],"reflects":[196],"expanded":[197],"coverage,":[199],"although":[200],"small":[202],"fraction":[203],"inherent":[208],"k-mer-based":[210],"methods.":[211],"Overall,":[212],"effectively":[214],"eliminates":[215],"long-standing":[217],"bottleneck":[219],"classification,":[225],"rapid":[227],"scalable":[229],"analysis":[232],"complex":[234],"environmental,":[235],"ecological,":[236],"exposomic":[238],"sequencing":[239]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-05-08T15:41:06.802602","created_date":"2026-03-17T00:00:00"}
