{"id":"W2340677892","doi":"10.1155/2016/5381871","title":"Genomic Analysis of a Serotype 5<i>Streptococcus pneumoniae</i>Outbreak in British Columbia, Canada, 2005–2009","year":2016,"lang":"en","type":"article","venue":"Canadian Journal of Infectious Diseases and Medical Microbiology","topic":"Pneumonia and Respiratory Infections","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Provincial Laboratory of Public Health; University of Alberta; St. Paul's Hospital; Public Health Agency of Canada; University of British Columbia; BC Centre for Disease Control; BC Cancer Agency; Providence Health Care; Simon Fraser University; Dalhousie University","funders":"British Columbia Centre for Disease Control; Canada's Michael Smith Genome Sciences Centre; Genome Canada; McGill University","keywords":"Outbreak; Multilocus sequence typing; Serotype; Whole genome sequencing; Biology; Streptococcus pneumoniae; Genome; Virology; Strain (injury); Genetics; Genotype; Gene; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001773108,0.0004092913,0.0003114194,0.001450387,0.002601069,0.0009207047,0.0005854146,0.0003604043,0.001235928],"category_scores_gemma":[0.000769039,0.0002196497,0.0002103884,0.003230178,0.0005165408,0.0001317572,0.0004776969,0.0004534096,0.0002100585],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.01724858,"about_ca_system_score_gemma":0.01749045,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.9902867,"about_ca_topic_score_gemma":0.9925251,"domain_scores_codex":[0.9995723,0.00001737714,0.00001875774,0.0000805586,0.0001631398,0.000147936],"domain_scores_gemma":[0.9989845,0.00004526442,0.00009528866,0.00001872823,0.0006680069,0.0001882128],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0009842217,0.0002524485,0.8905104,0.0004128422,0.000149537,0.005293136,0.005640205,0.001740898,0.04343015,0.0004040885,0.0101785,0.04100359],"study_design_scores_gemma":[0.000008461695,0.00004298343,0.9927586,0.00002839227,0.00002270591,0.0003514345,0.002113354,0.0005006373,0.0008769882,0.00001454583,0.003270729,0.00001118957],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9878721,0.0004717737,0.0002757134,0.0002753718,0.00001482973,0.0001059195,0.007258946,0.00002734349,0.003698029],"genre_scores_gemma":[0.9878544,0.0005047437,0.0008311497,0.0003236622,0.000006677616,0.00003299394,0.007906972,0.00001221351,0.002527099],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01724858,"threshold_uncertainty_score":0.1251478,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.003702626484492571,"score_gpt":0.2053210656176628,"score_spread":0.2016184391331702,"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."}}