{"id":"https://openalex.org/W7130385371","doi":"https://doi.org/10.1093/bioinformatics/btag067","title":"Prediction of bacterial protein\u2013compound interactions with only positive samples","display_name":"Prediction of bacterial protein\u2013compound interactions with only positive samples","publication_year":2026,"publication_date":"2026-02-06","ids":{"openalex":"https://openalex.org/W7130385371","doi":"https://doi.org/10.1093/bioinformatics/btag067","pmid":"https://pubmed.ncbi.nlm.nih.gov/41706651"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btag067","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag067","pdf_url":null,"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://doi.org/10.1093/bioinformatics/btag067","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029543488","display_name":"Ki\u2010Hwa Kim","orcid":null},"institutions":[{"id":"https://openalex.org/I4210110970","display_name":"National Institute of Genomic Medicine","ror":"https://ror.org/01qjckx08","country_code":"MX","type":"government","lineage":["https://openalex.org/I4210095685","https://openalex.org/I4210110970"]}],"countries":["MX"],"is_corresponding":true,"raw_author_name":"Ki-Hwa Kim","raw_affiliation_strings":["Genome-Based BioIT Convergence Institute , Asan, 31460,"],"affiliations":[{"raw_affiliation_string":"Genome-Based BioIT Convergence Institute , Asan, 31460,","institution_ids":["https://openalex.org/I4210110970"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5119056325","display_name":"Avinash Yaganapu","orcid":null},"institutions":[{"id":"https://openalex.org/I133999245","display_name":"University of Nevada, Las Vegas","ror":"https://ror.org/0406gha72","country_code":"US","type":"education","lineage":["https://openalex.org/I133999245"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Avinash Yaganapu","raw_affiliation_strings":["Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,","institution_ids":["https://openalex.org/I133999245"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010258542","display_name":"Sai Kosaraju","orcid":null},"institutions":[{"id":"https://openalex.org/I98947143","display_name":"California State Polytechnic University","ror":"https://ror.org/05by5hm18","country_code":"US","type":"education","lineage":["https://openalex.org/I98947143"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sai Kosaraju","raw_affiliation_strings":["Department of Computer Science, California State Polytechnic University , Pomona, CA, 91768,"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, California State Polytechnic University , Pomona, CA, 91768,","institution_ids":["https://openalex.org/I98947143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084662664","display_name":"Aashish Bhatt","orcid":"https://orcid.org/0000-0003-4393-2070"},"institutions":[{"id":"https://openalex.org/I93393672","display_name":"Western University of Health Sciences","ror":"https://ror.org/05167c961","country_code":"US","type":"education","lineage":["https://openalex.org/I93393672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aashish Bhatt","raw_affiliation_strings":["Department of Biotechnology and Pharmaceutical Sciences, Western University of Health Sciences , Pomona, CA, 91766,"],"affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Pharmaceutical Sciences, Western University of Health Sciences , Pomona, CA, 91766,","institution_ids":["https://openalex.org/I93393672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049007097","display_name":"Yun Lyna Luo","orcid":null},"institutions":[{"id":"https://openalex.org/I93393672","display_name":"Western University of Health Sciences","ror":"https://ror.org/05167c961","country_code":"US","type":"education","lineage":["https://openalex.org/I93393672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yun Lyna Luo","raw_affiliation_strings":["Department of Biotechnology and Pharmaceutical Sciences, Western University of Health Sciences , Pomona, CA, 91766,"],"affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Pharmaceutical Sciences, Western University of Health Sciences , Pomona, CA, 91766,","institution_ids":["https://openalex.org/I93393672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5119056326","display_name":"Sai Phani Parsa","orcid":null},"institutions":[{"id":"https://openalex.org/I133999245","display_name":"University of Nevada, Las Vegas","ror":"https://ror.org/0406gha72","country_code":"US","type":"education","lineage":["https://openalex.org/I133999245"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sai Phani Parsa","raw_affiliation_strings":["Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,","institution_ids":["https://openalex.org/I133999245"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070942251","display_name":"Juyeon Park","orcid":null},"institutions":[{"id":"https://openalex.org/I51926615","display_name":"Sun Moon University","ror":"https://ror.org/009e5cd49","country_code":"KR","type":"education","lineage":["https://openalex.org/I51926615"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Juyeon Park","raw_affiliation_strings":["Division of Computer Science and Engineering, Sun Moon University , Asan, 31460,"],"affiliations":[{"raw_affiliation_string":"Division of Computer Science and Engineering, Sun Moon University , Asan, 31460,","institution_ids":["https://openalex.org/I51926615"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102761946","display_name":"Hyun Lee","orcid":"https://orcid.org/0000-0003-0089-1002"},"institutions":[{"id":"https://openalex.org/I51926615","display_name":"Sun Moon University","ror":"https://ror.org/009e5cd49","country_code":"KR","type":"education","lineage":["https://openalex.org/I51926615"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Hyun Lee","raw_affiliation_strings":["Division of Computer Science and Engineering, Sun Moon University , Asan, 31460,"],"affiliations":[{"raw_affiliation_string":"Division of Computer Science and Engineering, Sun Moon University , Asan, 31460,","institution_ids":["https://openalex.org/I51926615"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126320885","display_name":"Jun Hyuck Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093716","display_name":"Korea Polar Research Institute","ror":"https://ror.org/00n14a494","country_code":"KR","type":"facility","lineage":["https://openalex.org/I133437993","https://openalex.org/I4210093716"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Jun Hyuck Lee","raw_affiliation_strings":["Division of Life Sciences, Korea Polar Research Institute , Incheon, 21990,"],"affiliations":[{"raw_affiliation_string":"Division of Life Sciences, Korea Polar Research Institute , Incheon, 21990,","institution_ids":["https://openalex.org/I4210093716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126337173","display_name":"Tae-Jin Oh","orcid":null},"institutions":[{"id":"https://openalex.org/I4210110970","display_name":"National Institute of Genomic Medicine","ror":"https://ror.org/01qjckx08","country_code":"MX","type":"government","lineage":["https://openalex.org/I4210095685","https://openalex.org/I4210110970"]},{"id":"https://openalex.org/I51926615","display_name":"Sun Moon University","ror":"https://ror.org/009e5cd49","country_code":"KR","type":"education","lineage":["https://openalex.org/I51926615"]}],"countries":["KR","MX"],"is_corresponding":false,"raw_author_name":"Tae-Jin Oh","raw_affiliation_strings":["Department of AI Biomedical Engineering, Graduate School, Sun Moon University , Asan, 31460,","Department of Pharmaceutical Engineering and Biotechnology, Sun Moon University , Asan, 31460,","Genome-Based BioIT Convergence Institute , Asan, 31460,"],"affiliations":[{"raw_affiliation_string":"Department of AI Biomedical Engineering, Graduate School, Sun Moon University , Asan, 31460,","institution_ids":["https://openalex.org/I51926615"]},{"raw_affiliation_string":"Department of Pharmaceutical Engineering and Biotechnology, Sun Moon University , Asan, 31460,","institution_ids":["https://openalex.org/I51926615"]},{"raw_affiliation_string":"Genome-Based BioIT Convergence Institute , Asan, 31460,","institution_ids":["https://openalex.org/I4210110970"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5126183705","display_name":"M. Kang","orcid":null},"institutions":[{"id":"https://openalex.org/I133999245","display_name":"University of Nevada, Las Vegas","ror":"https://ror.org/0406gha72","country_code":"US","type":"education","lineage":["https://openalex.org/I133999245"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mingon Kang","raw_affiliation_strings":["Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Nevada, Las Vegas , Las Vegas, NV, 89154,","institution_ids":["https://openalex.org/I133999245"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5029543488"],"corresponding_institution_ids":["https://openalex.org/I4210110970"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.40751844,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.3034000098705292,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.3034000098705292,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.2460000067949295,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.22660000622272491,"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/software","display_name":"Software","score":0.36579999327659607},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.29429998993873596},{"id":"https://openalex.org/keywords/statistical-analysis","display_name":"Statistical analysis","score":0.2685999870300293},{"id":"https://openalex.org/keywords/sample","display_name":"Sample (material)","score":0.25999999046325684}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5115000009536743},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.450300008058548},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.36579999327659607},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36010000109672546},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.29429998993873596},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.29010000824928284},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2867000102996826},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2815999984741211},{"id":"https://openalex.org/C2986587452","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical analysis","level":2,"score":0.2685999870300293},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.25999999046325684},{"id":"https://openalex.org/C2910302809","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiological Techniques","level":2,"score":0.25929999351501465}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D003577","descriptor_name":"Cytochrome P-450 Enzyme System","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D003577","descriptor_name":"Cytochrome P-450 Enzyme System","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btag067","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag067","pdf_url":null,"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:41706651","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41706651","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:12975285","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12975285/","pdf_url":null,"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/btag067","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag067","pdf_url":null,"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":[],"awards":[{"id":"https://openalex.org/G1910097925","display_name":"U.S. CMS Research Program","funder_award_id":"0441423","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3034753964","display_name":null,"funder_award_id":"grant","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"},{"id":"https://openalex.org/G342704958","display_name":null,"funder_award_id":"funded","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G4857644396","display_name":null,"funder_award_id":"2117941","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6072120315","display_name":null,"funder_award_id":"funded","funder_id":"https://openalex.org/F4320335489","funder_display_name":"Institute for Information and Communications Technology Promotion"},{"id":"https://openalex.org/G6137499454","display_name":null,"funder_award_id":"RS-2024-00441423","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G79968265","display_name":null,"funder_award_id":"76255","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research 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/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320328359","display_name":"Ministry of Science and ICT, South Korea","ror":"https://ror.org/01wpjm123"},{"id":"https://openalex.org/F4320335489","display_name":"Institute for Information and Communications Technology Promotion","ror":"https://ror.org/01g0hqq23"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W1585685987","https://openalex.org/W1999420977","https://openalex.org/W2012438480","https://openalex.org/W2018796817","https://openalex.org/W2062631723","https://openalex.org/W2077373870","https://openalex.org/W2127294029","https://openalex.org/W2139516496","https://openalex.org/W2139648620","https://openalex.org/W2139736926","https://openalex.org/W2153838454","https://openalex.org/W2204887665","https://openalex.org/W2270852357","https://openalex.org/W2399976582","https://openalex.org/W2740007916","https://openalex.org/W2795711855","https://openalex.org/W2798936682","https://openalex.org/W2860192827","https://openalex.org/W2899867782","https://openalex.org/W2900661627","https://openalex.org/W2904035258","https://openalex.org/W2904742480","https://openalex.org/W2972480226","https://openalex.org/W3028589594","https://openalex.org/W3118572216","https://openalex.org/W3129020707","https://openalex.org/W3177355874","https://openalex.org/W4210686592","https://openalex.org/W4281644575","https://openalex.org/W4311489249","https://openalex.org/W4317481676","https://openalex.org/W4319456536","https://openalex.org/W4322494188","https://openalex.org/W4387164156","https://openalex.org/W4390621089","https://openalex.org/W4401323657","https://openalex.org/W4401887944","https://openalex.org/W4402512994","https://openalex.org/W4403324307","https://openalex.org/W4403713815","https://openalex.org/W4404531735"],"related_works":[],"abstract_inverted_index":{"The":[0],"source":[1],"code":[2],"and":[3],"data":[4],"are":[5],"available":[6],"at":[7],"https://github.com/datax-lab/CYP.":[8]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2026-02-19T00:00:00"}