{"id":"W2102338246","doi":"10.1128/jcm.02589-14","title":"Whole-Genome Phylogenomic Heterogeneity of Neisseria gonorrhoeae Isolates with Decreased Cephalosporin Susceptibility Collected in Canada between 1989 and 2013","year":2014,"lang":"en","type":"article","venue":"Journal of Clinical Microbiology","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":111,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen Elizabeth II Health Sciences Centre; Dr. Georges-L.-Dumont University Hospital Centre; Provincial Laboratory of Public Health; Ste. Anne's Hospital; BC Centre for Disease Control; Public Health Ontario; Public Health Agency of Canada; Toronto Public Health; Alberta Health Services; Saskatchewan Disease Control Laboratory; University of Manitoba","funders":"","keywords":"Biology; Neisseria gonorrhoeae; Genetics; Clade; Whole genome sequencing; Genome; Multilocus sequence typing; Typing; Molecular epidemiology; Cephalosporin; Allele; Phylogenetics; Genotype; Evolutionary biology; Gene; Antibiotics","routes":{"ca_aff":true,"ca_fund":false,"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":[0.002478953,0.000233301,0.001357546,0.0002268359,0.0000743326,0.000007038097,0.0003534322,0.0003429519,0.0001248506],"category_scores_gemma":[0.001224633,0.0001761997,0.0001503366,0.0002853909,0.000725131,0.00007965575,0.0001017859,0.001028674,0.00001610539],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002123532,"about_ca_system_score_gemma":0.001606785,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.1163107,"about_ca_topic_score_gemma":0.4376189,"domain_scores_codex":[0.995458,0.001782013,0.001849925,0.0004459686,0.00001541802,0.0004486619],"domain_scores_gemma":[0.9959363,0.002022336,0.001036023,0.0004081482,0.000492586,0.0001045863],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0008850961,0.0001659621,0.5291418,0.00001610209,0.000251606,0.000001182472,0.00001756962,0.00002749228,0.4684085,0.000002628729,0.00007787528,0.001004212],"study_design_scores_gemma":[0.003318512,0.002187971,0.9658166,0.00003025546,0.00006607243,0.0003191314,0.00005139171,0.000001788247,0.01621767,0.00005140126,0.01176728,0.0001719642],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977692,0.001016622,0.00005279618,0.0003401533,0.0003583893,0.000294235,0.0001276106,0.000005337081,0.00003563453],"genre_scores_gemma":[0.9994079,0.0001450041,0.0001710376,0.00004804081,0.0001001449,0.000003119919,0.00005893524,0.00001749361,0.00004836316],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4521908,"threshold_uncertainty_score":0.8895739,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02674253466086242,"score_gpt":0.3082429427525707,"score_spread":0.2815004080917083,"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."}}