{"id":"W2092103784","doi":"10.7717/peerj.806","title":"Population structure of <i>Neisseria gonorrhoeae</i> based on whole genome data and its relationship with antibiotic resistance","year":2015,"lang":"en","type":"article","venue":"PeerJ","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":86,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Saskatchewan","funders":"Centers for Disease Control and Prevention; National Institutes of Health; Medical Research Council; National Institute for Health and Care Research; National Institute of Allergy and Infectious Diseases; Broad Institute","keywords":"Neisseria gonorrhoeae; Gonorrhea; Antibiotic resistance; Population; Biology; Antibiotics; Cefixime; Genetics; Multilocus sequence typing; Microbiology; Azithromycin; Drug resistance; Medicine; Virology; Genotype; Cephalosporin; Gene; Environmental health","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003042822,0.00009724731,0.0001597509,0.0001329312,0.0001007085,0.00001329042,0.0001699788,0.0001011471,0.00004250995],"category_scores_gemma":[0.0005516449,0.00007944705,0.00001043602,0.0002535446,0.00008501436,0.0001755208,0.00004892936,0.00023031,0.00004820432],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003934206,"about_ca_system_score_gemma":0.00007670801,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005935377,"about_ca_topic_score_gemma":0.0002073925,"domain_scores_codex":[0.9991502,0.0001696579,0.000149216,0.000346551,0.00003606641,0.0001483632],"domain_scores_gemma":[0.9989192,0.0001215945,0.00008958222,0.0006664844,0.0001791332,0.00002398512],"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":[0.001006567,0.0001698662,0.4927979,0.0001115484,0.00007664929,0.00000123094,0.0002081485,0.001513954,0.5011392,0.001318842,0.001350967,0.0003052154],"study_design_scores_gemma":[0.000945083,0.0002351613,0.9799968,0.00003604352,0.00003020072,0.00001954027,0.00005197908,0.0001248531,0.01065057,0.0002404981,0.007541945,0.0001273522],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969151,0.0009824157,0.0001135901,0.0004016975,0.0001090446,0.0002528197,0.0003190397,0.00003025817,0.0008760435],"genre_scores_gemma":[0.9972215,0.000002916486,0.0002606935,0.00001541478,0.00002298931,0.000001324806,0.001160783,0.00001304689,0.001301278],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4904886,"threshold_uncertainty_score":0.3239757,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0503887032109989,"score_gpt":0.3027363893530853,"score_spread":0.2523476861420864,"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."}}