{"id":"W4377011370","doi":"10.1099/mgen.0.001002","title":"A global survey of Salmonella plasmids and their associations with antimicrobial resistance","year":2023,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"Government of Canada; Public Health Agency; Public Health Agency of Canada","keywords":"Plasmid; Biology; Salmonella; Genetics; Serotype; Salmonella enterica; Horizontal gene transfer; Replicon; Gene; Genome; Microbiology; Bacteria","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002582772,0.000158499,0.0002181195,0.00002888679,0.00008181943,0.00003171747,0.0001710308,0.0001427037,0.000002434457],"category_scores_gemma":[0.00006251642,0.0001450379,0.00004192186,0.0002566296,0.000182377,0.000003223365,0.0001224709,0.00004471893,0.000005610196],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004025091,"about_ca_system_score_gemma":0.0001568161,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001246047,"about_ca_topic_score_gemma":0.003697116,"domain_scores_codex":[0.9990885,0.00007352548,0.0002313158,0.0003134578,0.00004698342,0.0002462639],"domain_scores_gemma":[0.9994035,0.00002477327,0.0001490014,0.0002603008,0.0001174913,0.00004487561],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003284282,0.00002809476,0.102483,0.00002827506,0.00008902769,0.000002962633,0.0000476325,0.00006225972,0.8908199,0.00001995461,0.006012934,0.00007754818],"study_design_scores_gemma":[0.0007964032,0.00009552983,0.8174258,0.00003310482,0.00001887772,0.00001816681,0.00005728282,0.0000145108,0.1760848,0.00002664177,0.005123118,0.0003057193],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969683,0.00008618319,0.0003430616,0.00005250713,0.0001095084,0.000147094,0.002011165,0.00001679615,0.0002653679],"genre_scores_gemma":[0.9973377,0.0002175379,0.001077613,0.00005578264,0.00006192424,0.000001091151,0.0007231414,0.00002433491,0.0005008965],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7149428,"threshold_uncertainty_score":0.5914477,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01142618487166453,"score_gpt":0.2285423272161425,"score_spread":0.217116142344478,"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."}}