{"id":"W1995592206","doi":"10.1016/j.ygeno.2013.07.014","title":"Genetic boundaries to delineate the typhoid agent and other Salmonella serotypes into distinct natural lineages","year":2013,"lang":"en","type":"article","venue":"Genomics","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":15,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Calgary","funders":"Natural Science Foundation of Heilongjiang Province; National Natural Science Foundation of China","keywords":"Serotype; Biology; Salmonella; Salmonella typhi; Typhoid fever; Microbiology; Lineage (genetic); Salmonella enterica; Phylogenetic tree; Polyphyly; Genetics; Virology; Gene; Bacteria; Escherichia coli","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":[0.000393888,0.0001479264,0.0001772859,0.0008176406,0.0004502791,0.0005546377,0.0003133803,0.0004071244,0.001310489],"category_scores_gemma":[0.000788575,0.0001311456,0.0001949345,0.0005359161,0.0006473477,0.0003881888,0.0005079429,0.0007292273,0.0002270629],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005879323,"about_ca_system_score_gemma":0.0005404761,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002551664,"about_ca_topic_score_gemma":0.005467797,"domain_scores_codex":[0.9997467,0.00008948936,0.00001393023,0.00006475787,0.00003033454,0.00005465734],"domain_scores_gemma":[0.9992712,0.0002706675,0.0002059281,0.00006341754,0.0001021935,0.00008650147],"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":[0.001083825,0.0003810136,0.2002046,0.0001526529,0.00007049811,0.0003343242,0.003736138,0.001154142,0.7592932,0.01272123,0.0003678173,0.02050054],"study_design_scores_gemma":[0.00009141653,0.0006487691,0.9384084,0.0001115208,0.00007988951,0.001025248,0.005674929,0.004295723,0.0321762,0.00666357,0.01079301,0.00003137134],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993129,0.0001516241,0.003265948,0.0000890561,0.000007032388,0.00003139383,0.0002077185,0.000008517292,0.003109739],"genre_scores_gemma":[0.9959185,0.0001167529,0.002909338,0.0001554322,0.000007272579,0.00002733934,0.0003729611,0.00001328817,0.0004792152],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002551664,"threshold_uncertainty_score":0.005073667,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01576309961184915,"score_gpt":0.2228480795282842,"score_spread":0.207084979916435,"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."}}