{"id":"https://openalex.org/W4394759652","doi":"https://doi.org/10.1093/bioinformatics/btae180","title":"Causal-ARG: a causality-guided framework for annotating properties of antibiotic resistance genes","display_name":"Causal-ARG: a causality-guided framework for annotating properties of antibiotic resistance genes","publication_year":2024,"publication_date":"2024-03-29","ids":{"openalex":"https://openalex.org/W4394759652","doi":"https://doi.org/10.1093/bioinformatics/btae180","pmid":"https://pubmed.ncbi.nlm.nih.gov/38569882"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae180","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae180","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/4/btae180/57274997/btae180.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/40/4/btae180/57274997/btae180.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079405950","display_name":"Weizhong Zhao","orcid":"https://orcid.org/0000-0001-8552-6084"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Weizhong Zhao","raw_affiliation_strings":["Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China","National Language Resources Monitoring & Research Center for Network Media, Central China Normal University , Wuhan, Hubei 430079, P.R. China","School of Computer, Central China Normal University , Wuhan, Hubei 430079, P.R. China"],"affiliations":[{"raw_affiliation_string":"Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]},{"raw_affiliation_string":"National Language Resources Monitoring & Research Center for Network Media, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]},{"raw_affiliation_string":"School of Computer, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013692094","display_name":"Junze Wu","orcid":null},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junze Wu","raw_affiliation_strings":["Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China"],"affiliations":[{"raw_affiliation_string":"Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003550654","display_name":"Xingpeng Jiang","orcid":"https://orcid.org/0000-0002-8848-9300"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xingpeng Jiang","raw_affiliation_strings":["Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China"],"affiliations":[{"raw_affiliation_string":"Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102010131","display_name":"Tingting He","orcid":"https://orcid.org/0000-0001-7523-6550"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tingting He","raw_affiliation_strings":["Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China"],"affiliations":[{"raw_affiliation_string":"Hubei Provincial Key Laboratory of Artificial Intelligence and Smart Learning, Central China Normal University , Wuhan, Hubei 430079, P.R. China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101569679","display_name":"Xiaohua Hu","orcid":"https://orcid.org/0000-0002-4777-3022"},"institutions":[{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaohua Hu","raw_affiliation_strings":["College of Computing & Informatics, Drexel University , Philadelphia, PA 19104, United States"],"affiliations":[{"raw_affiliation_string":"College of Computing & Informatics, Drexel University , Philadelphia, PA 19104, United States","institution_ids":["https://openalex.org/I72816309"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5079405950"],"corresponding_institution_ids":["https://openalex.org/I40963666"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.287,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.60406521,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"40","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10897","display_name":"Antibiotic Use and Resistance","score":0.9941999912261963,"subfield":{"id":"https://openalex.org/subfields/2402","display_name":"Applied Microbiology and Biotechnology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10897","display_name":"Antibiotic Use and Resistance","score":0.9941999912261963,"subfield":{"id":"https://openalex.org/subfields/2402","display_name":"Applied Microbiology and Biotechnology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10147","display_name":"Antibiotic Resistance in Bacteria","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1313","display_name":"Molecular Medicine"},"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/T10419","display_name":"Pharmaceutical and Antibiotic Environmental Impacts","score":0.980400025844574,"subfield":{"id":"https://openalex.org/subfields/2310","display_name":"Pollution"},"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/causality","display_name":"Causality (physics)","score":0.743732750415802},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5628843307495117},{"id":"https://openalex.org/keywords/resistance","display_name":"Resistance (ecology)","score":0.529453694820404},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5149624943733215},{"id":"https://openalex.org/keywords/antibiotics","display_name":"Antibiotics","score":0.4931339621543884},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44321301579475403},{"id":"https://openalex.org/keywords/antibiotic-resistance","display_name":"Antibiotic resistance","score":0.4417659044265747},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3962995111942291},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3960241377353668},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08552184700965881},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.08299964666366577}],"concepts":[{"id":"https://openalex.org/C64357122","wikidata":"https://www.wikidata.org/wiki/Q1149766","display_name":"Causality (physics)","level":2,"score":0.743732750415802},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5628843307495117},{"id":"https://openalex.org/C57473165","wikidata":"https://www.wikidata.org/wiki/Q7315604","display_name":"Resistance (ecology)","level":2,"score":0.529453694820404},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5149624943733215},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.4931339621543884},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44321301579475403},{"id":"https://openalex.org/C94665300","wikidata":"https://www.wikidata.org/wiki/Q63391344","display_name":"Antibiotic resistance","level":3,"score":0.4417659044265747},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3962995111942291},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3960241377353668},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08552184700965881},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.08299964666366577},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","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":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}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae180","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae180","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/4/btae180/57274997/btae180.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38569882","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38569882","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},{"id":"pmh:oai:pubmedcentral.nih.gov:11026140","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11026140","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11026140/pdf/btae180.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae180","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae180","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/4/btae180/57274997/btae180.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.4300000071525574}],"awards":[{"id":"https://openalex.org/G1100817172","display_name":null,"funder_award_id":"619320","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1307575636","display_name":null,"funder_award_id":"61932008","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1750061152","display_name":null,"funder_award_id":"2022CFB289","funder_id":"https://openalex.org/F4320322186","funder_display_name":"Natural Science Foundation of Hubei Province"},{"id":"https://openalex.org/G235156935","display_name":null,"funder_award_id":"62372205","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7537086629","display_name":null,"funder_award_id":"6193200","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"},{"id":"https://openalex.org/F4320322186","display_name":"Natural Science Foundation of Hubei Province","ror":null}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4394759652.pdf"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1987625100","https://openalex.org/W1989122238","https://openalex.org/W2017331448","https://openalex.org/W2171309014","https://openalex.org/W2305704688","https://openalex.org/W2542768043","https://openalex.org/W2805300175","https://openalex.org/W2921872415","https://openalex.org/W2951274106","https://openalex.org/W2952369555","https://openalex.org/W2966931150","https://openalex.org/W2982531601","https://openalex.org/W2994388045","https://openalex.org/W3007309629","https://openalex.org/W3128120098","https://openalex.org/W3205657162","https://openalex.org/W4206677002","https://openalex.org/W4207067711","https://openalex.org/W4211258437","https://openalex.org/W4226250938","https://openalex.org/W4300672471","https://openalex.org/W4309666648","https://openalex.org/W6754506371","https://openalex.org/W6760517126","https://openalex.org/W6769556952","https://openalex.org/W6807087183"],"related_works":["https://openalex.org/W2955020749","https://openalex.org/W2029063045","https://openalex.org/W2507683919","https://openalex.org/W2076505260","https://openalex.org/W4226193097","https://openalex.org/W4320037900","https://openalex.org/W4297123388","https://openalex.org/W3032187068","https://openalex.org/W4221083638","https://openalex.org/W3152803520"],"abstract_inverted_index":{"The":[0],"data":[1],"and":[2],"source":[3],"codes":[4],"are":[5],"available":[6],"in":[7],"GitHub":[8],"at":[9],"https://github.com/David-WZhao/CausalARG.":[10]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2025-10-10T00:00:00"}
