{"id":"W2056905062","doi":"10.1097/qai.0b013e3181e8c7b0","title":"Longitudinal Phylogenetic Surveillance Identifies Distinct Patterns of Cluster Dynamics","year":2010,"lang":"en","type":"article","venue":"JAIDS Journal of Acquired Immune Deficiency Syndromes","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":53,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"","keywords":"Phylogenetic tree; Cluster (spacecraft); Biology; Population; Phylogenetics; Genotype; Molecular epidemiology; Evolutionary biology; Genetics; Demography; Gene","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":[0.001294007,0.0002016103,0.0002723332,0.001314779,0.0006028487,0.0007576366,0.0003398596,0.0003613747,0.0009825471],"category_scores_gemma":[0.004521402,0.0001958427,0.0002006652,0.001085389,0.0002834044,0.0005739187,0.0006054591,0.0003426637,0.0002204657],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007163727,"about_ca_system_score_gemma":0.0006122199,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01654454,"about_ca_topic_score_gemma":0.02470674,"domain_scores_codex":[0.9994696,0.0001594697,0.00002892307,0.0001477833,0.00007307338,0.0001212446],"domain_scores_gemma":[0.9974661,0.0006126195,0.0009764624,0.0001924787,0.0005240752,0.0002283233],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001354496,0.0000218477,0.989758,0.00002110896,0.0000377353,0.000045214,0.000360069,0.0006528584,0.002708374,0.00009849893,0.0002270913,0.005933707],"study_design_scores_gemma":[0.000005687324,0.00007025912,0.9908117,0.0000191197,0.00001776851,0.000145047,0.0005426531,0.007199452,0.000504458,0.0002066035,0.0004691018,0.000008047281],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9978574,0.000176156,0.001336943,0.00005023167,0.000001887612,0.00001272581,0.0002720089,0.00002282005,0.0002697366],"genre_scores_gemma":[0.9976539,0.00005917208,0.001551293,0.00001665346,0.000003585552,0.00001057636,0.0005874209,0.000004536939,0.0001128325],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01654454,"threshold_uncertainty_score":0.03289652,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01237877262561309,"score_gpt":0.2610090829396515,"score_spread":0.2486303103140384,"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."}}