{"id":"https://openalex.org/W4296776269","doi":"https://doi.org/10.1093/bioinformatics/btac468","title":"3CAC: improving the classification of phages and plasmids in metagenomic assemblies using assembly graphs","display_name":"3CAC: improving the classification of phages and plasmids in metagenomic assemblies using assembly graphs","publication_year":2022,"publication_date":"2022-08-24","ids":{"openalex":"https://openalex.org/W4296776269","doi":"https://doi.org/10.1093/bioinformatics/btac468","pmid":"https://pubmed.ncbi.nlm.nih.gov/36124804"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac468","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac468","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/Supplement_2/ii56/49886183/btac468.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"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/bioinformatics/article-pdf/38/Supplement_2/ii56/49886183/btac468.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5039129661","display_name":"Lianrong Pu","orcid":"https://orcid.org/0009-0003-3669-8156"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Lianrong Pu","raw_affiliation_strings":["The Blavatnik School of Computer Science, Tel Aviv University , Tel Aviv, 69978, Israel"],"affiliations":[{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University , Tel Aviv, 69978, Israel","institution_ids":["https://openalex.org/I16391192"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038806020","display_name":"Ron Shamir","orcid":"https://orcid.org/0000-0003-1889-9870"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Ron Shamir","raw_affiliation_strings":["The Blavatnik School of Computer Science, Tel Aviv University , Tel Aviv, 69978, Israel"],"affiliations":[{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University , Tel Aviv, 69978, Israel","institution_ids":["https://openalex.org/I16391192"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5039129661"],"corresponding_institution_ids":["https://openalex.org/I16391192"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.3581,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.80633348,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"38","issue":"Supplement_2","first_page":"ii56","last_page":"ii61"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.998199999332428,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9861000180244446,"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/metagenomics","display_name":"Metagenomics","score":0.8253337144851685},{"id":"https://openalex.org/keywords/plasmid","display_name":"Plasmid","score":0.755131721496582},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5563487410545349},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40727975964546204},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36026155948638916},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.22122758626937866},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11195969581604004}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8253337144851685},{"id":"https://openalex.org/C22744801","wikidata":"https://www.wikidata.org/wiki/Q172778","display_name":"Plasmid","level":3,"score":0.755131721496582},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5563487410545349},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40727975964546204},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36026155948638916},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22122758626937866},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11195969581604004}],"mesh":[{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"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":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btac468","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac468","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/Supplement_2/ii56/49886183/btac468.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36124804","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36124804","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac468","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac468","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/Supplement_2/ii56/49886183/btac468.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2210708459","display_name":null,"funder_award_id":"ECCB2022","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320323278","display_name":"Council for Higher Education","ror":"https://ror.org/036mqp197"},{"id":"https://openalex.org/F4320335375","display_name":"Planning and Budgeting Committee of the Council for Higher Education of Israel","ror":null},{"id":"https://openalex.org/F4320337393","display_name":"Division of Chemistry","ror":"https://ror.org/01ar8dr59"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4296776269.pdf","grobid_xml":"https://content.openalex.org/works/W4296776269.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W926723875","https://openalex.org/W2027831845","https://openalex.org/W2115590956","https://openalex.org/W2119859604","https://openalex.org/W2119902463","https://openalex.org/W2340022657","https://openalex.org/W2460813857","https://openalex.org/W2587382807","https://openalex.org/W2612402838","https://openalex.org/W2732139758","https://openalex.org/W2770886876","https://openalex.org/W2782623083","https://openalex.org/W2789843538","https://openalex.org/W2791465597","https://openalex.org/W2884944393","https://openalex.org/W2891135984","https://openalex.org/W2922563085","https://openalex.org/W2923823616","https://openalex.org/W2942757983","https://openalex.org/W2949831026","https://openalex.org/W2950266744","https://openalex.org/W2950310673","https://openalex.org/W2950530458","https://openalex.org/W2951785081","https://openalex.org/W2970367351","https://openalex.org/W3003110834","https://openalex.org/W3011335316","https://openalex.org/W3014345701","https://openalex.org/W3017386511","https://openalex.org/W3027089056","https://openalex.org/W3033129278","https://openalex.org/W3091506611","https://openalex.org/W3091956242","https://openalex.org/W3119160562","https://openalex.org/W3120395810","https://openalex.org/W3127656915","https://openalex.org/W3173711206","https://openalex.org/W4205677193"],"related_works":["https://openalex.org/W2210738511","https://openalex.org/W2474302342","https://openalex.org/W1910109602","https://openalex.org/W4297131566","https://openalex.org/W2017364432","https://openalex.org/W2080583581","https://openalex.org/W3037682416","https://openalex.org/W3195915274","https://openalex.org/W3158976456","https://openalex.org/W4285082713"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
