{"id":"W3127018168","doi":"10.1099/mgen.0.000511","title":"Transmission, adaptation and geographical spread of the Pseudomonas aeruginosa Liverpool epidemic strain","year":2021,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Cystic Fibrosis Research Advances","field":"Medicine","cited_by":22,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval","funders":"National Health and Medical Research Council; Cystic Fibrosis Trust; Cystic Fibrosis Canada","keywords":"Prophage; Biology; Genome; Lineage (genetic); Phylogenetic tree; Population genomics; Genetics; Whole genome sequencing; Clade; Strain (injury); Comparative genomics; Population; Multilocus sequence typing; Genomics; Gene; Genotype; Medicine; Bacteriophage","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"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":[0.0002346348,0.0002300147,0.0001882225,0.0006498245,0.0004974384,0.0006643865,0.0002326706,0.0002791987,0.0007454306],"category_scores_gemma":[0.0009898267,0.0001557308,0.0001525781,0.0008466239,0.000317908,0.0002944604,0.0006018603,0.0003708859,0.0001872769],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007938948,"about_ca_system_score_gemma":0.0007464169,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0794367,"about_ca_topic_score_gemma":0.05964043,"domain_scores_codex":[0.9995907,0.00005825024,0.00002659921,0.0001080584,0.00008601032,0.0001304125],"domain_scores_gemma":[0.9996076,0.00006657398,0.0001421185,0.00003421253,0.00009736916,0.00005206549],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0009594901,0.0001094001,0.7613214,0.0001846138,0.00008600629,0.002937929,0.005636242,0.0005163976,0.1980364,0.0004422865,0.000703763,0.02906608],"study_design_scores_gemma":[0.000006293961,0.0000896871,0.9951051,0.00001781906,0.0000150907,0.0008295219,0.00114171,0.0002875102,0.001752043,0.00004204139,0.0006990919,0.00001407233],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990492,0.0002108398,0.0001295325,0.00002256732,0.000001185354,0.000006794103,0.0001436739,0.000002885245,0.0004332484],"genre_scores_gemma":[0.9989115,0.0002802136,0.0002007556,0.00002987258,0.000002500177,0.000007443294,0.0003344289,0.000003475372,0.000229863],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0794367,"threshold_uncertainty_score":0.1579486,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01812040175098389,"score_gpt":0.2624197849440496,"score_spread":0.2442993831930657,"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."}}