{"id":"W3084374422","doi":"10.1093/molbev/msaa226","title":"Evolutionary Genomics of Niche-Specific Adaptation to the Cystic Fibrosis Lung in <i>Pseudomonas aeruginosa</i>","year":2020,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":29,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa; Agriculture and Agri-Food Canada","funders":"Natural Sciences and Engineering Research Council of Canada; Cystic Fibrosis Canada","keywords":"Biology; Pseudomonas aeruginosa; Cystic fibrosis; Adaptation (eye); Niche; Genomics; Evolutionary biology; Computational biology; Genome; Genetics; Ecology; Bacteria; Gene; Neuroscience","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002115472,0.0001620815,0.0003025658,0.0005752696,0.0003515165,0.0003972377,0.0001770027,0.0004004934,0.0005486704],"category_scores_gemma":[0.0004373943,0.0001287919,0.00022861,0.0006098804,0.0002397829,0.0002631851,0.0004182607,0.0003330815,0.0001401812],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003602224,"about_ca_system_score_gemma":0.0002007588,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002301389,"about_ca_topic_score_gemma":0.003397723,"domain_scores_codex":[0.9998272,0.00003266602,0.00000819441,0.00005951673,0.00003134063,0.00004105571],"domain_scores_gemma":[0.9996948,0.00008489299,0.0001022428,0.00001557041,0.00003810543,0.00006440593],"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":[0.0003231362,0.00005384604,0.05150709,0.0001013659,0.00007978887,0.0002251554,0.0005178794,0.000757582,0.9371548,0.0003512896,0.0001507263,0.0087774],"study_design_scores_gemma":[0.000005717927,0.0001299584,0.990164,0.00001265657,0.00002900897,0.0003559582,0.0003036036,0.001720014,0.005994852,0.0002219285,0.00104896,0.00001333216],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9986442,0.0002463328,0.000417558,0.00004007666,0.000001460316,0.000004298611,0.000222157,0.000009240911,0.0004146259],"genre_scores_gemma":[0.9981328,0.0001674193,0.0006538473,0.00006221221,0.00000341078,0.00001022296,0.0006810806,0.00001279053,0.0002762977],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002301389,"threshold_uncertainty_score":0.004576027,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008157260596635007,"score_gpt":0.2195735401867738,"score_spread":0.2114162795901388,"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."}}