{"id":"https://openalex.org/W2996376737","doi":"https://doi.org/10.1371/journal.pcbi.1007562","title":"Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection","display_name":"Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection","publication_year":2019,"publication_date":"2019-12-20","ids":{"openalex":"https://openalex.org/W2996376737","doi":"https://doi.org/10.1371/journal.pcbi.1007562","mag":"2996376737","pmid":"https://pubmed.ncbi.nlm.nih.gov/31860667"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1007562","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007562","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007562&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007562&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5074340109","display_name":"Jinyuan Yan","orcid":"https://orcid.org/0000-0003-2046-5625"},"institutions":[{"id":"https://openalex.org/I1334819555","display_name":"Memorial Sloan Kettering Cancer Center","ror":"https://ror.org/02yrq0923","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1334819555"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jinyuan Yan","raw_affiliation_strings":["Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America","institution_ids":["https://openalex.org/I1334819555"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070149850","display_name":"Henri Estanbouli","orcid":null},"institutions":[{"id":"https://openalex.org/I1334819555","display_name":"Memorial Sloan Kettering Cancer Center","ror":"https://ror.org/02yrq0923","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1334819555"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Henri Estanbouli","raw_affiliation_strings":["Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America","institution_ids":["https://openalex.org/I1334819555"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051379791","display_name":"Chen Liao","orcid":"https://orcid.org/0000-0001-8474-1196"},"institutions":[{"id":"https://openalex.org/I1334819555","display_name":"Memorial Sloan Kettering Cancer Center","ror":"https://ror.org/02yrq0923","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1334819555"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chen Liao","raw_affiliation_strings":["Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America","institution_ids":["https://openalex.org/I1334819555"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100662246","display_name":"Wook Kim","orcid":"https://orcid.org/0000-0001-6818-9688"},"institutions":[{"id":"https://openalex.org/I165102784","display_name":"Duquesne University","ror":"https://ror.org/02336z538","country_code":"US","type":"education","lineage":["https://openalex.org/I165102784"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wook Kim","raw_affiliation_strings":["Department of Biological Sciences, Duquesne University, Pittsburgh, Pennsylvania, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Duquesne University, Pittsburgh, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I165102784"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088968927","display_name":"Jonathan M. Monk","orcid":"https://orcid.org/0000-0002-3895-8949"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonathan M. Monk","raw_affiliation_strings":["Department of Bioengineering, University of California San Diego, La Jolla, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California San Diego, La Jolla, California, United States of America","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074008129","display_name":"Rayees Rahman","orcid":"https://orcid.org/0000-0002-0248-0680"},"institutions":[{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rayees Rahman","raw_affiliation_strings":["Icahn School of Medicine at Mount Sinai, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Icahn School of Medicine at Mount Sinai, New York, New York, United States of America","institution_ids":["https://openalex.org/I98704320"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081315630","display_name":"Mini Kamboj","orcid":"https://orcid.org/0000-0002-3122-6374"},"institutions":[{"id":"https://openalex.org/I1334819555","display_name":"Memorial Sloan Kettering Cancer Center","ror":"https://ror.org/02yrq0923","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1334819555"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mini Kamboj","raw_affiliation_strings":["Infection Control, Department of Medicine, Memorial Sloan-Kettering Cancer Center, New York, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Infection Control, Department of Medicine, Memorial Sloan-Kettering Cancer Center, New York, New York, New York, United States of America","institution_ids":["https://openalex.org/I1334819555"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051097609","display_name":"Bernhard \u00d8. Palsson","orcid":"https://orcid.org/0000-0003-2357-6785"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bernhard O. Palsson","raw_affiliation_strings":["Department of Bioengineering, University of California San Diego, La Jolla, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California San Diego, La Jolla, California, United States of America","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058885083","display_name":"Weigang Qiu","orcid":"https://orcid.org/0000-0003-4585-1872"},"institutions":[{"id":"https://openalex.org/I121847817","display_name":"The Graduate Center, CUNY","ror":"https://ror.org/00awd9g61","country_code":"US","type":"education","lineage":["https://openalex.org/I121847817"]},{"id":"https://openalex.org/I39694355","display_name":"Hunter College","ror":"https://ror.org/00g2xk477","country_code":"US","type":"education","lineage":["https://openalex.org/I39694355"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weigang Qiu","raw_affiliation_strings":["Department of Biological Sciences, Hunter College & Graduate Center, CUNY, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Hunter College & Graduate Center, CUNY, New York, New York, United States of America","institution_ids":["https://openalex.org/I39694355","https://openalex.org/I121847817"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028819015","display_name":"Jo\u00e3o B. Xavier","orcid":"https://orcid.org/0000-0003-3592-1689"},"institutions":[{"id":"https://openalex.org/I1334819555","display_name":"Memorial Sloan Kettering Cancer Center","ror":"https://ror.org/02yrq0923","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1334819555"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Joao B. Xavier","raw_affiliation_strings":["Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America","institution_ids":["https://openalex.org/I1334819555"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5028819015"],"corresponding_institution_ids":["https://openalex.org/I1334819555"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.7201,"has_fulltext":true,"cited_by_count":18,"citation_normalized_percentile":{"value":0.6449069,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"15","issue":"12","first_page":"e1007562","last_page":"e1007562"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10147","display_name":"Antibiotic Resistance in Bacteria","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T10147","display_name":"Antibiotic Resistance in Bacteria","score":1.0,"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/T10038","display_name":"Tuberculosis Research and Epidemiology","score":0.9919000267982483,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11036","display_name":"Antibiotics Pharmacokinetics and Efficacy","score":0.9919000267982483,"subfield":{"id":"https://openalex.org/subfields/2736","display_name":"Pharmacology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/aztreonam","display_name":"Aztreonam","score":0.8154674768447876},{"id":"https://openalex.org/keywords/pseudomonas-aeruginosa","display_name":"Pseudomonas aeruginosa","score":0.7542544603347778},{"id":"https://openalex.org/keywords/efflux","display_name":"Efflux","score":0.6701328158378601},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6597687005996704},{"id":"https://openalex.org/keywords/drug-resistance","display_name":"Drug resistance","score":0.5559664368629456},{"id":"https://openalex.org/keywords/resistome","display_name":"Resistome","score":0.5442382097244263},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.5376426577568054},{"id":"https://openalex.org/keywords/antibiotic-resistance","display_name":"Antibiotic resistance","score":0.5279532670974731},{"id":"https://openalex.org/keywords/antibiotics","display_name":"Antibiotics","score":0.5272936820983887},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5011641979217529},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.44767722487449646},{"id":"https://openalex.org/keywords/microbiology","display_name":"Microbiology","score":0.4277510344982147},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21571114659309387},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.14334619045257568},{"id":"https://openalex.org/keywords/integron","display_name":"Integron","score":0.11489859223365784},{"id":"https://openalex.org/keywords/imipenem","display_name":"Imipenem","score":0.09516391158103943},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.06394854187965393}],"concepts":[{"id":"https://openalex.org/C2780416669","wikidata":"https://www.wikidata.org/wiki/Q418546","display_name":"Aztreonam","level":5,"score":0.8154674768447876},{"id":"https://openalex.org/C2777637488","wikidata":"https://www.wikidata.org/wiki/Q31856","display_name":"Pseudomonas aeruginosa","level":3,"score":0.7542544603347778},{"id":"https://openalex.org/C200082930","wikidata":"https://www.wikidata.org/wiki/Q22327148","display_name":"Efflux","level":2,"score":0.6701328158378601},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6597687005996704},{"id":"https://openalex.org/C114851261","wikidata":"https://www.wikidata.org/wiki/Q12147416","display_name":"Drug resistance","level":2,"score":0.5559664368629456},{"id":"https://openalex.org/C2776666601","wikidata":"https://www.wikidata.org/wiki/Q3457855","display_name":"Resistome","level":5,"score":0.5442382097244263},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.5376426577568054},{"id":"https://openalex.org/C94665300","wikidata":"https://www.wikidata.org/wiki/Q63391344","display_name":"Antibiotic resistance","level":3,"score":0.5279532670974731},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.5272936820983887},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5011641979217529},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.44767722487449646},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.4277510344982147},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21571114659309387},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.14334619045257568},{"id":"https://openalex.org/C2776650774","wikidata":"https://www.wikidata.org/wiki/Q420197","display_name":"Integron","level":4,"score":0.11489859223365784},{"id":"https://openalex.org/C2779631663","wikidata":"https://www.wikidata.org/wiki/Q425152","display_name":"Imipenem","level":4,"score":0.09516391158103943},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.06394854187965393}],"mesh":[{"descriptor_ui":"D000073658","descriptor_name":"Loss of Function Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073658","descriptor_name":"Loss of Function Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073658","descriptor_name":"Loss of Function Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073658","descriptor_name":"Loss of Function Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001398","descriptor_name":"Aztreonam","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001398","descriptor_name":"Aztreonam","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001398","descriptor_name":"Aztreonam","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001398","descriptor_name":"Aztreonam","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","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":"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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011550","descriptor_name":"Pseudomonas aeruginosa","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D011552","descriptor_name":"Pseudomonas Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012097","descriptor_name":"Repressor Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013597","descriptor_name":"Systems Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013597","descriptor_name":"Systems Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013597","descriptor_name":"Systems Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013597","descriptor_name":"Systems Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024881","descriptor_name":"Drug Resistance, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024881","descriptor_name":"Drug Resistance, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024881","descriptor_name":"Drug Resistance, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024881","descriptor_name":"Drug Resistance, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1007562","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007562","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007562&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:31860667","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31860667","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:5b947b4c36764b55841040636d831295","is_oa":true,"landing_page_url":"https://doaj.org/article/5b947b4c36764b55841040636d831295","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 15, Iss 12, p e1007562 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5916672","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6944390","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/11420550","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Systems-level_analysis_of_NalD_mutation_a_recurrent_driver_of_rapid_drug_resistance_in_acute_i_Pseudomonas_aeruginosa_i_infection/11420550","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1007562","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007562","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007562&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.8600000143051147,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1465662819","display_name":null,"funder_award_id":"MCB-1517002","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4211398330","display_name":null,"funder_award_id":"U01 AI124275","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5714236367","display_name":null,"funder_award_id":"AI124275","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7200354634","display_name":null,"funder_award_id":"R01 AI137269","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7633626242","display_name":null,"funder_award_id":"1517002","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/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2996376737.pdf","grobid_xml":"https://content.openalex.org/works/W2996376737.grobid-xml"},"referenced_works_count":71,"referenced_works":["https://openalex.org/W1535444764","https://openalex.org/W1893769864","https://openalex.org/W1963845190","https://openalex.org/W1964957585","https://openalex.org/W1970517964","https://openalex.org/W1975675040","https://openalex.org/W1979152503","https://openalex.org/W1986456585","https://openalex.org/W1995355078","https://openalex.org/W1998633945","https://openalex.org/W2003343094","https://openalex.org/W2009149329","https://openalex.org/W2010025771","https://openalex.org/W2013256585","https://openalex.org/W2019644636","https://openalex.org/W2045921664","https://openalex.org/W2048465561","https://openalex.org/W2076760451","https://openalex.org/W2078848565","https://openalex.org/W2086368616","https://openalex.org/W2095695414","https://openalex.org/W2097145546","https://openalex.org/W2097944090","https://openalex.org/W2102263261","https://openalex.org/W2106359046","https://openalex.org/W2108638835","https://openalex.org/W2112178731","https://openalex.org/W2123785844","https://openalex.org/W2128247334","https://openalex.org/W2130443164","https://openalex.org/W2130479394","https://openalex.org/W2131766513","https://openalex.org/W2135046866","https://openalex.org/W2139284253","https://openalex.org/W2141360045","https://openalex.org/W2142270568","https://openalex.org/W2145918716","https://openalex.org/W2149198421","https://openalex.org/W2153975567","https://openalex.org/W2162666840","https://openalex.org/W2172129062","https://openalex.org/W2187790984","https://openalex.org/W2189116376","https://openalex.org/W2360987185","https://openalex.org/W2472592146","https://openalex.org/W2539530515","https://openalex.org/W2556853968","https://openalex.org/W2559133556","https://openalex.org/W2598043550","https://openalex.org/W2614344377","https://openalex.org/W2741520502","https://openalex.org/W2748973356","https://openalex.org/W2766544290","https://openalex.org/W2766792538","https://openalex.org/W2770469910","https://openalex.org/W2782393048","https://openalex.org/W2792585663","https://openalex.org/W2796890769","https://openalex.org/W2804143592","https://openalex.org/W2808905273","https://openalex.org/W2899792074","https://openalex.org/W2899841051","https://openalex.org/W2901785129","https://openalex.org/W2907119150","https://openalex.org/W2941703063","https://openalex.org/W2950737134","https://openalex.org/W2952018421","https://openalex.org/W2976399950","https://openalex.org/W4239940030","https://openalex.org/W7074203742","https://openalex.org/W7075691286"],"related_works":["https://openalex.org/W3032191698","https://openalex.org/W2370090518","https://openalex.org/W1973911317","https://openalex.org/W4378175416","https://openalex.org/W4360866248","https://openalex.org/W2370209325","https://openalex.org/W4394737415","https://openalex.org/W2353654206","https://openalex.org/W2139663729","https://openalex.org/W2464877043"],"abstract_inverted_index":{"Pseudomonas":[0],"aeruginosa,":[1],"a":[2,16,20,42,91,144,180],"main":[3],"cause":[4],"of":[5,23,31,67,83,101,112,121,139,159,179,197],"human":[6],"infection,":[7],"can":[8,75],"gain":[9],"resistance":[10,49,54,84,129,190],"to":[11,40,50,55,98,127,152,192],"the":[12,86,99,103,109,122,137,140,149,156,177,195],"antibiotic":[13,207],"aztreonam":[14,128,172],"through":[15],"mutation":[17,74,116],"in":[18,77,136,163,194],"NalD,":[19],"transcriptional":[21],"repressor":[22],"cellular":[24],"efflux.":[25],"Here":[26],"we":[27],"combine":[28],"computational":[29],"analysis":[30,66,107],"clinical":[32],"isolates,":[33],"transcriptomics,":[34],"metabolic":[35,146,165,186],"modeling":[36],"and":[37,48,79,95,167,199],"experimental":[38],"validation":[39],"find":[41],"strong":[43],"association":[44],"between":[45],"NalD":[46,113],"mutations":[47,191],"aztreonam-as":[51],"well":[52],"as":[53],"other":[56],"antibiotics-across":[57],"P.":[58],"aeruginosa":[59],"isolated":[60],"from":[61],"different":[62],"patients.":[63],"A":[64],"detailed":[65],"one":[68],"patient's":[69,104],"timeline":[70],"shows":[71],"how":[72],"this":[73],"emerge":[76],"vivo":[78],"drive":[80],"rapid":[81],"evolution":[82],"while":[85],"patient":[87],"received":[88],"cancer":[89],"treatment,":[90],"bone":[92],"marrow":[93],"transplantation,":[94],"antibiotics":[96,198],"up":[97],"point":[100],"causing":[102],"death.":[105],"Transcriptomics":[106],"confirmed":[108],"primary":[110,157],"mechanism":[111,158],"action-a":[114],"loss-of-function":[115],"that":[117,185],"caused":[118],"constitutive":[119],"overexpression":[120],"MexAB-OprM":[123],"efflux":[124],"system-which":[125],"lead":[126],"but,":[130],"surprisingly,":[131],"had":[132],"no":[133],"fitness":[134,181],"cost":[135],"absence":[138,196],"antibiotic.":[141],"We":[142,183],"constrained":[143],"genome-scale":[145],"model":[147],"using":[148],"transcriptomics":[150],"data":[151],"investigate":[153],"changes":[154],"beyond":[155],"resistance,":[160,173],"including":[161],"adaptations":[162,187],"major":[164],"pathways":[166],"membrane":[168],"transport":[169],"concurrent":[170],"with":[171],"which":[174],"may":[175,188],"explain":[176],"lack":[178],"cost.":[182],"propose":[184],"allow":[189],"endure":[193],"could":[200],"be":[201],"targeted":[202],"by":[203],"future":[204],"therapies":[205],"against":[206],"resistant":[208],"pathogens.":[209]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}