{"id":"W2942178134","doi":"10.1186/s12879-019-3913-7","title":"An unusual case of Erysipelothrix rhusiopathiae prosthetic joint infection from the Canadian Arctic: whole genome sequencing unable to identify a zoonotic source","year":2019,"lang":"en","type":"article","venue":"BMC Infectious Diseases","topic":"Microbial infections and disease research","field":"Immunology and Microbiology","cited_by":22,"is_retracted":false,"has_abstract":true,"ca_institutions":"Provincial Laboratory of Public Health; University of Calgary; University of Alberta","funders":"Natural Sciences and Engineering Research Council of Canada; Faculty of Veterinary Medicine, University of Calgary","keywords":"Erysipelothrix rhusiopathiae; Medical microbiology; Biology; Parasitology; Whole genome sequencing; Amoxicillin; Septic arthritis; Microbiology; Medicine; Antibiotics; Genome; Immunology; Arthritis; Zoology; Genetics; Gene","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":["metaepi_narrow","insufficient_payload"],"consensus_categories":["insufficient_payload"],"category_scores_codex":[0.0004018718,0.0002969186,0.0003922392,0.000430022,0.0009245239,0.0001882919,0.0001992352,0.0002156891,0.001541979],"category_scores_gemma":[0.0003275656,0.0002457166,0.000244751,0.000591529,0.0002274967,0.0002562439,0.0001283706,0.0003574826,0.001971963],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000785897,"about_ca_system_score_gemma":0.001520317,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.6269941,"about_ca_topic_score_gemma":0.5133431,"domain_scores_codex":[0.9975628,0.0006273979,0.0004471267,0.0005829058,0.00009147455,0.0006882632],"domain_scores_gemma":[0.9981288,0.0001937761,0.000159124,0.0008288705,0.0003898047,0.0002996139],"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":[0.0002073323,0.0006789322,0.4448086,0.0002521248,0.0002854638,0.0001006557,0.001626818,0.008397174,0.5414265,0.000450287,0.0003925016,0.001373623],"study_design_scores_gemma":[0.005731654,0.003038859,0.9450463,0.0005989576,0.001148679,0.003633556,0.00315638,0.0007506005,0.01912246,0.001913633,0.01387978,0.001979129],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9958088,0.0007122083,0.0005226029,0.00005380553,0.000547547,0.001315004,0.0006110172,0.0001425201,0.0002865181],"genre_scores_gemma":[0.9987107,0.00001241577,0.000013433,0.0002560236,0.0001036488,0.0001177363,0.0003244866,0.00004914811,0.0004124453],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.522304,"threshold_uncertainty_score":0.9999995,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02067497904905233,"score_gpt":0.2790674827595397,"score_spread":0.2583925037104873,"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."}}