{"id":"W3036756961","doi":"10.1128/mra.00228-20","title":"Closed Genome Sequences and Antimicrobial Resistance Profiles of Eight Wild Bird <i>Salmonella</i> Isolates Obtained with MinION and Illumina MiSeq Sequencing","year":2020,"lang":"en","type":"article","venue":"Microbiology Resource Announcements","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Food Inspection Agency","funders":"Public Health Agency; Public Health Agency of Canada; Ontario Ministry of Agriculture, Food and Rural Affairs; Canadian Food Inspection Agency","keywords":"Minion; Salmonella enterica; Biology; Plasmid; Genetics; Nanopore sequencing; Genome; Illumina dye sequencing; Salmonella; Whole genome sequencing; DNA sequencing; Gene; Microbiology; Bacteria","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002772452,0.0003271207,0.0005747623,0.0000249333,0.0002369937,0.00003185171,0.0002799704,0.0002271631,0.00002958388],"category_scores_gemma":[0.00004477944,0.0001495334,0.0000577481,0.0003006061,0.0007309362,0.00009259883,0.0001577767,0.000175349,0.000007141402],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002737079,"about_ca_system_score_gemma":0.00002262873,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001125219,"about_ca_topic_score_gemma":0.0001075751,"domain_scores_codex":[0.9979569,0.0002570254,0.0004796486,0.000741683,0.00006706057,0.0004977012],"domain_scores_gemma":[0.9991732,0.0001685701,0.0003332123,0.00009144165,0.00008765795,0.000145934],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0004650877,0.00002669556,0.07868806,0.00007385048,0.00006250867,0.00001243035,0.0005682403,0.000002469531,0.9190722,0.000007929715,0.000572242,0.0004482843],"study_design_scores_gemma":[0.005326679,0.007737428,0.09027331,0.0008552638,0.0003999284,0.0006009354,0.00933396,0.0001301743,0.2006273,0.0002571982,0.681205,0.003252854],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9939812,0.001705717,0.000005516495,0.003002224,0.00002927587,0.0003815827,0.0006515322,0.0000692133,0.0001737483],"genre_scores_gemma":[0.9961665,0.0003507136,0.000438744,0.002026432,0.000131284,0.0000123416,0.0007200586,0.000005713563,0.0001481734],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7184449,"threshold_uncertainty_score":0.6097795,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01792082163040632,"score_gpt":0.1958004466477194,"score_spread":0.1778796250173131,"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."}}