{"id":"W2948158875","doi":"10.1101/664508","title":"Development of a multi-locus typing scheme for an <i>Enterobacteriaceae</i> linear plasmid that mediates inter-species transfer of flagella","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Food Inspection Agency; Public Health Agency of Canada","funders":"","keywords":"Multilocus sequence typing; Biology; Plasmid; Genetics; Genome; Locus (genetics); Replicon; Gene; Typing; Horizontal gene transfer; Computational biology; Genotype","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0009609698,0.0004161318,0.0005124008,0.001045658,0.0002845597,0.0005893208,0.0004936942,0.0003867122,0.001087364],"category_scores_gemma":[0.001226898,0.0003334109,0.0005233515,0.0005803541,0.0002371586,0.0004125554,0.0007138059,0.000805259,0.0009118202],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003060595,"about_ca_system_score_gemma":0.0004429359,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001240338,"about_ca_topic_score_gemma":0.001513251,"domain_scores_codex":[0.9991755,0.0001488636,0.00009024782,0.0002755262,0.0002188794,0.00009086054],"domain_scores_gemma":[0.9990419,0.0001826665,0.0002258034,0.0001835,0.000245924,0.0001202123],"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":[0.0001804367,0.00005756488,0.004656694,0.000071406,0.00001400081,0.00003251436,0.00004412533,0.0003711759,0.9734557,0.000184679,0.0001252658,0.0208064],"study_design_scores_gemma":[0.00003481819,0.00055387,0.02185002,0.00004135602,0.00008593652,0.0005069933,0.00008947155,0.01657773,0.9535978,0.0001764943,0.006447145,0.00003840022],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7238401,0.0003558854,0.2663174,0.0002561342,0.00005614361,0.0007044298,0.004230601,0.00228167,0.00195759],"genre_scores_gemma":[0.5704023,0.0002016011,0.4190338,0.0001106428,0.00001440119,0.0002908861,0.007890077,0.0001934115,0.001862895],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001240338,"threshold_uncertainty_score":0.00508219,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03205119533326056,"score_gpt":0.2361654202252242,"score_spread":0.2041142248919636,"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."}}