{"id":"W4206900660","doi":"10.1101/2022.01.24.22269736","title":"Population-based sequencing of <i>Mycobacterium tuberculosis</i> reveals how current population dynamics are shaped by past epidemics","year":2022,"lang":"en","type":"preprint","venue":"medRxiv","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"Ministerio de Ciencia e Innovación; European Commission","keywords":"Transmission (telecommunications); Viral phylodynamics; Population; Tuberculosis; Epidemiology; Mycobacterium tuberculosis; Public health; Geography; Cluster analysis; Environmental health; Biology; Medicine; Genetics; Phylogenetics; Computer science","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":[0.001342088,0.0002763054,0.0003770913,0.0009456127,0.0004196005,0.001144652,0.0005175387,0.0005336971,0.001425183],"category_scores_gemma":[0.002538543,0.0002095044,0.0006059824,0.001334339,0.0004214815,0.0005089653,0.0006213366,0.0006074489,0.0005429377],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000894862,"about_ca_system_score_gemma":0.000567183,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01721303,"about_ca_topic_score_gemma":0.01767306,"domain_scores_codex":[0.9991857,0.0002156556,0.00004852132,0.0003744333,0.00005330809,0.0001223013],"domain_scores_gemma":[0.99878,0.0003201055,0.0003639405,0.0002195444,0.000210793,0.0001056484],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001828625,0.00004223463,0.9385475,0.0002548039,0.0004826367,0.0002379021,0.0008844961,0.02263541,0.01323815,0.001193794,0.002015644,0.02028444],"study_design_scores_gemma":[0.00002160408,0.00009435825,0.9646648,0.0001377823,0.0001616301,0.0002624805,0.001144547,0.02217747,0.001426298,0.001657323,0.008213893,0.00003788215],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9891115,0.0005506491,0.004048709,0.0002096642,0.00001621844,0.000008775254,0.004736552,0.00006265756,0.001255317],"genre_scores_gemma":[0.9938145,0.0001729952,0.001851631,0.00008829444,0.0000100026,0.000008817836,0.00384384,0.00001807945,0.0001919169],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01721303,"threshold_uncertainty_score":0.03422564,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04154941742183946,"score_gpt":0.3286570045914537,"score_spread":0.2871075871696143,"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."}}