{"id":"W4327814673","doi":"10.1038/s41467-023-37200-w","title":"Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria","year":2023,"lang":"en","type":"article","venue":"Nature Communications","topic":"Metabolomics and Mass Spectrometry Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":63,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Infection and Immunity; Faculty of Medicine and Health, University of Sydney; Monash Biomedicine Discovery Institute, Monash University; National Institute of Allergy and Infectious Diseases; Medical Research Council; Murdoch University; University of Queensland; Monash University; Children's Medical Research; University of New South Wales; University of Technology Sydney; University of Sydney; Australian Cancer Research Foundation; School of Life and Environmental Sciences, Deakin University; National Health and Medical Research Council; Queensland University of Technology; Commonwealth Scientific and Industrial Research Organisation; Australian Government; Wellcome Trust; University of Melbourne; Macquarie University","keywords":"Biology; Sepsis; Microbiology; Bacteria; Metabolomics; Klebsiella pneumoniae; Escherichia coli; Antibiotic resistance; Pathogen; Omics; Septic shock; Antibiotics; Bioinformatics; Gene; Genetics; Immunology","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001197689,0.001070575,0.001424422,0.003415006,0.0007686946,0.001541005,0.0006282545,0.0006934594,0.001773988],"category_scores_gemma":[0.001615706,0.0002459851,0.001208912,0.003770809,0.0003373715,0.0008167116,0.001981382,0.0006332413,0.0009129077],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000600755,"about_ca_system_score_gemma":0.001172209,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001874546,"about_ca_topic_score_gemma":0.003115494,"domain_scores_codex":[0.999017,0.0001852831,0.00008052428,0.0003819305,0.0001906671,0.000144639],"domain_scores_gemma":[0.9992476,0.0001763703,0.0001300347,0.0001988363,0.0001661991,0.00008100244],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00217176,0.0003271396,0.1118136,0.005137936,0.001786171,0.0009587551,0.0007052529,0.01363531,0.7400774,0.004588282,0.01778309,0.1010153],"study_design_scores_gemma":[0.0001345822,0.0007628984,0.703976,0.0007929508,0.001475937,0.001486185,0.001408462,0.02581691,0.07948004,0.01590407,0.1685471,0.0002148161],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5620778,0.01208392,0.03642938,0.001078005,0.0002006746,0.0002072048,0.3774033,0.002080021,0.008439721],"genre_scores_gemma":[0.3836881,0.005598149,0.04374439,0.0006128227,0.00008679798,0.0004365295,0.5639173,0.000446641,0.001469243],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003415006,"threshold_uncertainty_score":0.006334066,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0331417979997537,"score_gpt":0.3180337652382595,"score_spread":0.2848919672385058,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}