{"id":"https://openalex.org/W4324130370","doi":"https://doi.org/10.1093/bib/bbad087","title":"Benchmarking genome assembly methods on metagenomic sequencing data","display_name":"Benchmarking genome assembly methods on metagenomic sequencing data","publication_year":2023,"publication_date":"2023-02-16","ids":{"openalex":"https://openalex.org/W4324130370","doi":"https://doi.org/10.1093/bib/bbad087","pmid":"https://pubmed.ncbi.nlm.nih.gov/36917471"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad087","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad087/49560752/bbad087.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad087/49560752/bbad087.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024808861","display_name":"Zhenmiao Zhang","orcid":"https://orcid.org/0000-0003-3748-1664"},"institutions":[{"id":"https://openalex.org/I141568987","display_name":"Hong Kong Baptist University","ror":"https://ror.org/0145fw131","country_code":"HK","type":"education","lineage":["https://openalex.org/I141568987"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Zhenmiao Zhang","raw_affiliation_strings":["Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong","institution_ids":["https://openalex.org/I141568987"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030126344","display_name":"Chao Yang","orcid":"https://orcid.org/0000-0001-8732-5497"},"institutions":[{"id":"https://openalex.org/I141568987","display_name":"Hong Kong Baptist University","ror":"https://ror.org/0145fw131","country_code":"HK","type":"education","lineage":["https://openalex.org/I141568987"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Chao Yang","raw_affiliation_strings":["Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong","institution_ids":["https://openalex.org/I141568987"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038837940","display_name":"Werner Pieter Veldsman","orcid":"https://orcid.org/0000-0001-9837-8332"},"institutions":[{"id":"https://openalex.org/I141568987","display_name":"Hong Kong Baptist University","ror":"https://ror.org/0145fw131","country_code":"HK","type":"education","lineage":["https://openalex.org/I141568987"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Werner Pieter Veldsman","raw_affiliation_strings":["Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong","institution_ids":["https://openalex.org/I141568987"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052083635","display_name":"Xiaodong Fang","orcid":"https://orcid.org/0000-0001-7061-3337"},"institutions":[{"id":"https://openalex.org/I100135526","display_name":"BGI Group (China)","ror":"https://ror.org/045pn2j94","country_code":"CN","type":"company","lineage":["https://openalex.org/I100135526"]},{"id":"https://openalex.org/I117532281","display_name":"Guangzhou University of Chinese Medicine","ror":"https://ror.org/03qb7bg95","country_code":"CN","type":"education","lineage":["https://openalex.org/I117532281"]},{"id":"https://openalex.org/I4387152444","display_name":"BGI Genomics","ror":"https://ror.org/0155ctq43","country_code":null,"type":"company","lineage":["https://openalex.org/I100135526","https://openalex.org/I4387152444"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaodong Fang","raw_affiliation_strings":["BGI-Shenzhen BGI Genomics, , Shenzhen, China","Shenzhen BGI-Shenzhen, , China","The Second Affiliated Hospital of Guangzhou University of Chinese Medicine State Key Laboratory of Dampness Syndrome of Chinese Medicine, , Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BGI-Shenzhen BGI Genomics, , Shenzhen, China","institution_ids":["https://openalex.org/I100135526","https://openalex.org/I4387152444"]},{"raw_affiliation_string":"Shenzhen BGI-Shenzhen, , China","institution_ids":["https://openalex.org/I100135526"]},{"raw_affiliation_string":"The Second Affiliated Hospital of Guangzhou University of Chinese Medicine State Key Laboratory of Dampness Syndrome of Chinese Medicine, , Guangzhou, China","institution_ids":["https://openalex.org/I117532281"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100388624","display_name":"Lu Zhang","orcid":"https://orcid.org/0000-0002-2794-7371"},"institutions":[{"id":"https://openalex.org/I141568987","display_name":"Hong Kong Baptist University","ror":"https://ror.org/0145fw131","country_code":"HK","type":"education","lineage":["https://openalex.org/I141568987"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Lu Zhang","raw_affiliation_strings":["Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong","Hong Kong Baptist University Institute for Research and Continuing Education, , Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hong Kong Baptist University Department of Computer Science, , Kowloon Tong , Hong Kong","institution_ids":["https://openalex.org/I141568987"]},{"raw_affiliation_string":"Hong Kong Baptist University Institute for Research and Continuing Education, , Shenzhen, China","institution_ids":["https://openalex.org/I141568987"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5100388624"],"corresponding_institution_ids":["https://openalex.org/I141568987"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.1127,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.96013066,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"24","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":0.9997000098228455,"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":0.9997000098228455,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9929999709129333,"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"}},{"id":"https://openalex.org/T11470","display_name":"Legume Nitrogen Fixing Symbiosis","score":0.9857000112533569,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.9596691131591797},{"id":"https://openalex.org/keywords/contig","display_name":"Contig","score":0.83427894115448},{"id":"https://openalex.org/keywords/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.7511715888977051},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.6841100454330444},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6271148920059204},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5589806437492371},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5462299585342407},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.5373138189315796},{"id":"https://openalex.org/keywords/hybrid-genome-assembly","display_name":"Hybrid genome assembly","score":0.5073577761650085},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.5036000609397888},{"id":"https://openalex.org/keywords/minion","display_name":"Minion","score":0.4980933666229248},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4622924029827118},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4399106502532959},{"id":"https://openalex.org/keywords/shotgun-sequencing","display_name":"Shotgun sequencing","score":0.428302526473999},{"id":"https://openalex.org/keywords/microbiome","display_name":"Microbiome","score":0.4248810410499573},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.24051055312156677},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20672306418418884},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12759676575660706}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.9596691131591797},{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.83427894115448},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.7511715888977051},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.6841100454330444},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6271148920059204},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5589806437492371},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5462299585342407},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.5373138189315796},{"id":"https://openalex.org/C113425843","wikidata":"https://www.wikidata.org/wiki/Q5953213","display_name":"Hybrid genome assembly","level":5,"score":0.5073577761650085},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.5036000609397888},{"id":"https://openalex.org/C2779927696","wikidata":"https://www.wikidata.org/wiki/Q6865654","display_name":"Minion","level":5,"score":0.4980933666229248},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4622924029827118},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4399106502532959},{"id":"https://openalex.org/C101985253","wikidata":"https://www.wikidata.org/wiki/Q1073526","display_name":"Shotgun sequencing","level":4,"score":0.428302526473999},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.4248810410499573},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.24051055312156677},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20672306418418884},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12759676575660706},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.0}],"mesh":[{"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"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":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","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":"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":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad087","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad087/49560752/bbad087.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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:36917471","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36917471","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}],"best_oa_location":{"id":"doi:10.1093/bib/bbad087","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad087","pdf_url":"https://academic.oup.com/bib/article-pdf/24/2/bbad087/49560752/bbad087.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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/G195812484","display_name":null,"funder_award_id":"2021A1515012226","funder_id":"https://openalex.org/F4320332533","funder_display_name":"Applied Basic Research Foundation of Yunnan Province"},{"id":"https://openalex.org/G2303175871","display_name":null,"funder_award_id":"2019A1515011046","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G6071506870","display_name":null,"funder_award_id":"IRCMS/19-20/D02","funder_id":"https://openalex.org/F4320320955","funder_display_name":"Hong Kong Baptist University"},{"id":"https://openalex.org/G6129609042","display_name":null,"funder_award_id":"SGDX20190919142801722","funder_id":"https://openalex.org/F4320326705","funder_display_name":"Science, Technology and Innovation Commission of Shenzhen Municipality"},{"id":"https://openalex.org/G6966040288","display_name":null,"funder_award_id":"2021A1515012226","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G7104190156","display_name":null,"funder_award_id":"2019A1515011046","funder_id":"https://openalex.org/F4320332533","funder_display_name":"Applied Basic Research Foundation of Yunnan Province"},{"id":"https://openalex.org/G92877236","display_name":null,"funder_award_id":"22201419","funder_id":"https://openalex.org/F4320320955","funder_display_name":"Hong Kong Baptist University"}],"funders":[{"id":"https://openalex.org/F4320320955","display_name":"Hong Kong Baptist University","ror":"https://ror.org/0145fw131"},{"id":"https://openalex.org/F4320326705","display_name":"Science, Technology and Innovation Commission of Shenzhen Municipality","ror":null},{"id":"https://openalex.org/F4320329534","display_name":"Shenzhen Virtual University Park","ror":null},{"id":"https://openalex.org/F4320332533","display_name":"Applied Basic Research Foundation of Yunnan Province","ror":"https://ror.org/030jhb479"},{"id":"https://openalex.org/F4320337111","display_name":"Basic and Applied Basic Research Foundation of Guangdong Province","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4324130370.pdf","grobid_xml":"https://content.openalex.org/works/W4324130370.grobid-xml"},"referenced_works_count":76,"referenced_works":["https://openalex.org/W1635391495","https://openalex.org/W1982855075","https://openalex.org/W1996053875","https://openalex.org/W2004416209","https://openalex.org/W2036897871","https://openalex.org/W2096634299","https://openalex.org/W2107772251","https://openalex.org/W2108234281","https://openalex.org/W2112364185","https://openalex.org/W2113679889","https://openalex.org/W2120902911","https://openalex.org/W2141920662","https://openalex.org/W2162055898","https://openalex.org/W2171309014","https://openalex.org/W2175526948","https://openalex.org/W2179507357","https://openalex.org/W2212407137","https://openalex.org/W2264578395","https://openalex.org/W2271006909","https://openalex.org/W2383775397","https://openalex.org/W2397469828","https://openalex.org/W2575750030","https://openalex.org/W2580040938","https://openalex.org/W2599417231","https://openalex.org/W2736920791","https://openalex.org/W2745006471","https://openalex.org/W2753961085","https://openalex.org/W2755804176","https://openalex.org/W2773939681","https://openalex.org/W2788228074","https://openalex.org/W2789843538","https://openalex.org/W2897233545","https://openalex.org/W2913972921","https://openalex.org/W2918965813","https://openalex.org/W2938868597","https://openalex.org/W2950354111","https://openalex.org/W2950671516","https://openalex.org/W2951278111","https://openalex.org/W2951912016","https://openalex.org/W2951934242","https://openalex.org/W2952167528","https://openalex.org/W2952204926","https://openalex.org/W2953326935","https://openalex.org/W2955099493","https://openalex.org/W2965025968","https://openalex.org/W2990618091","https://openalex.org/W2991295831","https://openalex.org/W2991611082","https://openalex.org/W2992976869","https://openalex.org/W2995649573","https://openalex.org/W3005528502","https://openalex.org/W3022783334","https://openalex.org/W3028873002","https://openalex.org/W3037791019","https://openalex.org/W3040245690","https://openalex.org/W3042305844","https://openalex.org/W3048756544","https://openalex.org/W3091506611","https://openalex.org/W3098103638","https://openalex.org/W3098495126","https://openalex.org/W3120530641","https://openalex.org/W3135022255","https://openalex.org/W3146423745","https://openalex.org/W3160752125","https://openalex.org/W3185343410","https://openalex.org/W3201783297","https://openalex.org/W3208186059","https://openalex.org/W3217463608","https://openalex.org/W4205677193","https://openalex.org/W4226092504","https://openalex.org/W4226179456","https://openalex.org/W4394666350","https://openalex.org/W6674561012","https://openalex.org/W6712159239","https://openalex.org/W6779930276","https://openalex.org/W6788178747"],"related_works":["https://openalex.org/W2121364424","https://openalex.org/W2521004200","https://openalex.org/W2953078967","https://openalex.org/W2809937935","https://openalex.org/W4306964587","https://openalex.org/W3121387483","https://openalex.org/W2735617493","https://openalex.org/W3196354870","https://openalex.org/W4402845323","https://openalex.org/W2903193789"],"abstract_inverted_index":{"Metagenome":[0],"assembly":[1,33,41,48,80,92,135,193,214],"is":[2,69],"an":[3],"efficient":[4],"approach":[5],"to":[6,45,95,154,189],"reconstruct":[7],"microbial":[8,55],"genomes":[9,161],"from":[10,100,173],"metagenomic":[11,64,96],"sequencing":[12,16,27,65,97,114,185],"data.":[13],"Although":[14],"short-read":[15,121],"has":[17],"been":[18],"widely":[19],"used":[20,91],"for":[21],"metagenome":[22,40,79],"assembly,":[23],"linked-":[24],"and":[25,50,67,119,127,129,158,183,195,208,216],"long-read":[26,132,146,184],"have":[28],"shown":[29],"their":[30],"advancements":[31],"in":[32,54],"by":[34],"providing":[35],"long-range":[36],"DNA":[37],"connectedness.":[38],"Many":[39],"tools":[42,93,136,215],"were":[43,110,137,186],"developed":[44],"simplify":[46],"the":[47,52,77,166,174,196,205],"graphs":[49],"resolve":[51],"repeats":[53],"genomes.":[56],"However,":[57],"there":[58,68],"remains":[59],"no":[60],"comprehensive":[61,86],"evaluation":[62],"of":[63,72,88,169,198,212],"technologies,":[66],"a":[70,85],"lack":[71],"practical":[73,218],"guidance":[74,219],"on":[75,220],"selecting":[76,221],"appropriate":[78],"tools.":[81],"This":[82,201],"paper":[83,202],"presents":[84],"benchmark":[87],"19":[89],"commonly":[90],"applied":[94],"datasets":[98,109],"obtained":[99,165],"simulation,":[101],"mock":[102],"communities":[103],"or":[104],"human":[105,175],"gut":[106,176],"microbiomes.":[107,177],"These":[108],"generated":[111,148],"using":[112,180],"mainstream":[113],"platforms,":[115],"such":[116],"as":[117],"Illumina":[118],"BGISEQ":[120],"sequencing,":[122,126],"10x":[123],"Genomics":[124],"linked-read":[125],"PacBio":[128],"Oxford":[130],"Nanopore":[131],"sequencing.":[133],"The":[134],"extensively":[138],"evaluated":[139],"against":[140],"many":[141],"criteria,":[142],"which":[143],"revealed":[144],"that":[145],"assemblers":[147,164,179],"high":[149],"contig":[150],"contiguity":[151],"but":[152],"failed":[153],"reveal":[155],"some":[156],"medium-":[157],"high-quality":[159],"metagenome-assembled":[160],"(MAGs).":[162],"Linked-read":[163],"highest":[167],"number":[168,197],"overall":[170],"near-complete":[171,199],"MAGs":[172],"Hybrid":[178],"both":[181,191],"short-":[182],"promising":[187],"methods":[188],"improve":[190],"total":[192],"length":[194],"MAGs.":[200],"also":[203],"discussed":[204],"running":[206],"time":[207],"peak":[209],"memory":[210],"consumption":[211],"these":[213],"provided":[217],"them.":[222]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":13},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
