{"id":"W2942909712","doi":"10.1101/619502","title":"Two cases of type-a <i>Haemophilus influenzae</i> meningitis within the same week in the same hospital are phylogenetically unrelated but recently exchanged capsule genes","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Bacterial Infections and Vaccines","field":"Immunology and Microbiology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"","keywords":"Serotype; Outbreak; Meningitis; Biology; Haemophilus influenzae; Phylogenetic tree; Transmission (telecommunications); Genome; Virology; Gene; Genetics; Medicine; Pediatrics; Bacteria","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":[0.00018897,0.0007622619,0.0003757961,0.001080611,0.001083993,0.0009723845,0.0007303513,0.001764078,0.001539869],"category_scores_gemma":[0.001211782,0.0005992185,0.0006773081,0.000528422,0.0009262247,0.0007082796,0.000855813,0.001425206,0.0004186899],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001131778,"about_ca_system_score_gemma":0.0003386826,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.006899721,"about_ca_topic_score_gemma":0.01000781,"domain_scores_codex":[0.9994548,0.00005964693,0.00005708118,0.0001876282,0.0000640315,0.0001768813],"domain_scores_gemma":[0.9991028,0.0001407953,0.0002864999,0.00007192369,0.00008169882,0.0003163245],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003345601,0.0002627998,0.5515631,0.0001057707,0.000114635,0.4290161,0.003468813,0.0001845447,0.007618483,0.0002427202,0.001637905,0.005450664],"study_design_scores_gemma":[0.00004072338,0.0003871924,0.4957225,0.00009485787,0.00008233508,0.4929775,0.004043525,0.0004138234,0.002670974,0.0001270232,0.003389009,0.00005041737],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9971206,0.0002355638,0.0003271728,0.0003233925,0.00006271009,0.00004144599,0.0001714852,0.00001646367,0.001701135],"genre_scores_gemma":[0.9986551,0.0001772052,0.0002911851,0.0002049677,0.00008798712,0.00001218474,0.0002638752,0.000007418029,0.0003001368],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.006899721,"threshold_uncertainty_score":0.01371908,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01932243223260925,"score_gpt":0.2300150606334725,"score_spread":0.2106926284008633,"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."}}