{"id":"W2149925047","doi":"10.1111/j.1462-2920.2012.02842.x","title":"Intraclonal diversity of the <i>Pseudomonas aeruginosa</i> cystic fibrosis airway isolates TBCF10839 and TBCF121838: distinct signatures of transcriptome, proteome, metabolome, adherence and pathogenicity despite an almost identical genome sequence","year":2012,"lang":"en","type":"article","venue":"Environmental Microbiology","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":54,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"","keywords":"Biology; Genetics; Pathogenicity island; Prophage; Whole genome sequencing; Genome; Transcriptome; Genomic island; Frameshift mutation; Multilocus sequence typing; Virulence; Gene; Microbiology; Mutation; Genotype; Escherichia coli; Bacteriophage","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002193171,0.0002285901,0.0002907849,0.00002528797,0.0001739225,0.00000896677,0.0002030479,0.0002457535,0.00003538359],"category_scores_gemma":[0.00002497071,0.0001761834,0.00009008851,0.0000491439,0.001078569,0.00002367245,0.0005370185,0.000148363,0.000001171349],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001424185,"about_ca_system_score_gemma":0.0000129571,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004904206,"about_ca_topic_score_gemma":0.00001920966,"domain_scores_codex":[0.9987341,0.0002047727,0.0003112794,0.0003642687,0.00005602985,0.0003295803],"domain_scores_gemma":[0.9994299,0.00002818324,0.0001819832,0.0002387501,0.0000109181,0.0001102497],"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":[0.0001799473,0.0001199379,0.0745616,0.00002956279,0.00005073861,6.737686e-7,0.0001696989,0.000001452677,0.924578,0.00001124664,0.000004494028,0.0002926814],"study_design_scores_gemma":[0.0003433015,0.0003788749,0.2699096,0.0000116077,0.00007652427,0.00009237047,0.0000559372,0.000002784715,0.7284726,0.000007521398,0.0004703914,0.0001785033],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9957933,0.002615289,0.00005629032,0.00002322349,0.0001542754,0.0003012307,0.001045748,0.000004322857,0.0000063098],"genre_scores_gemma":[0.9984121,0.0002099009,0.00100572,0.00007643133,0.00006056992,0.000004368157,0.0001968361,0.00001345908,0.00002056077],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1961054,"threshold_uncertainty_score":0.718455,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007214860356604433,"score_gpt":0.1970936965323184,"score_spread":0.1898788361757139,"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."}}