{"id":"W2839379418","doi":"10.1038/s41598-018-28908-7","title":"Whole genome sequencing and phylogenetic analysis of strains of the agent of Lyme disease Borrelia burgdorferi from Canadian emergence zones","year":2018,"lang":"en","type":"article","venue":"Scientific Reports","topic":"Vector-borne infectious diseases","field":"Immunology and Microbiology","cited_by":59,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Science Centre for Human and Animal Health; Public Health Agency of Canada","funders":"Public Health Agency; Public Health Agency of Canada","keywords":"Biology; Phylogenetic tree; Genome; Genetics; Whole genome sequencing; Borrelia burgdorferi; Clade; Locus (genetics); Phylogenetics; Lyme disease; Borrelia; Genetic diversity; Evolutionary biology; Gene; Virology; Population","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":[0.0003252756,0.000118592,0.0002980476,0.0003164971,0.0002121953,0.00001317569,0.0001801102,0.00006483708,0.000857827],"category_scores_gemma":[0.0001826657,0.00009355009,0.0001750169,0.0008641927,0.001351301,0.00003981149,0.00008456328,0.00004953946,0.000005369811],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000470456,"about_ca_system_score_gemma":0.000662886,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.05097478,"about_ca_topic_score_gemma":0.06712012,"domain_scores_codex":[0.9985878,0.0001007517,0.0005280933,0.0004489307,0.00009536157,0.0002390393],"domain_scores_gemma":[0.9982562,0.0000222436,0.0004670577,0.0008891386,0.0002728564,0.00009247888],"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":[0.000005953109,0.00003775369,0.261703,0.00001382065,0.0004932338,0.00001272527,0.0006256192,0.0001986273,0.7365189,0.0000146197,0.0002555152,0.0001202264],"study_design_scores_gemma":[0.00007173176,0.00003347968,0.9400322,0.00002717593,0.0009393243,0.000007662587,0.0002306339,0.00004012164,0.05716463,0.0004014846,0.0009459868,0.0001055711],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9947962,0.002297184,0.00002852106,0.00003020755,0.002036271,0.000171842,0.0005370133,0.000008418218,0.00009431048],"genre_scores_gemma":[0.9994327,0.00001043304,0.00001587819,0.00001302196,0.00001404518,0.000005319998,0.0001566299,0.000007041996,0.000344934],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6793543,"threshold_uncertainty_score":0.9553449,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01250606828021608,"score_gpt":0.2291305065349373,"score_spread":0.2166244382547212,"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."}}