{"id":"W4389508917","doi":"10.1186/s12890-023-02802-z","title":"Strain structure analysis of Mycobacterium tuberculosis circulating among HIV negative, positive and drug resistant TB patients attending chest clinics in Western Kenya","year":2023,"lang":"en","type":"article","venue":"BMC Pulmonary Medicine","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph","funders":"Universiteit Stellenbosch","keywords":"Medicine; Tuberculosis; Mycobacterium tuberculosis; Logistic regression; Internal medicine; Lineage (genetic); Beijing; Cross-sectional study; Public health; Isoniazid; Veterinary medicine; Pathology; Genetics; Biology","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.001524444,0.0003614886,0.001561531,0.001550041,0.0001039113,0.000009454636,0.0001665559,0.0002238798,0.0001136238],"category_scores_gemma":[0.002717752,0.0002834358,0.0001991325,0.002358791,0.0005206291,0.0002028243,0.0001893112,0.0005918651,0.000004437366],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001689877,"about_ca_system_score_gemma":0.00007993838,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001324055,"about_ca_topic_score_gemma":0.001437945,"domain_scores_codex":[0.9959756,0.0006377019,0.001259408,0.0007517049,0.0006578286,0.0007178102],"domain_scores_gemma":[0.9964625,0.002049473,0.0003798089,0.0004612746,0.0002335528,0.0004134159],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005629579,0.0001057284,0.9863541,0.0004267251,0.00062229,0.000228074,0.001431983,0.0001543584,0.008190786,0.00001416135,0.0001901944,0.001718602],"study_design_scores_gemma":[0.001720072,0.0003191835,0.978668,0.0007701313,0.0008916593,0.00001392345,0.001779368,0.01542998,0.00006176508,0.00007962812,0.00005118132,0.0002150652],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9958768,0.0002415034,0.00001799217,0.002269143,0.0001092805,0.0006195667,0.0004636991,0.00005608371,0.0003458591],"genre_scores_gemma":[0.9966909,0.0003237512,0.000210207,0.000341938,0.0001889082,0.00002254786,0.001990691,0.00004240086,0.0001886844],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01527562,"threshold_uncertainty_score":0.9999618,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02626101281069336,"score_gpt":0.3225529860017655,"score_spread":0.2962919731910721,"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."}}