{"id":"W2775128358","doi":"10.1137/17m1114946","title":"Tajima's D and Site-Specific Nucleotide Frequency in a Population during an Infectious Disease Outbreak","year":2017,"lang":"en","type":"article","venue":"SIAM Journal on Applied Mathematics","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Precursory Research for Embryonic Science and Technology; Japan Science and Technology Agency; Japan Society for the Promotion of Science; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs","keywords":"Biology; Population; Mutation rate; Epidemic model; Genetic diversity; Outbreak; Nucleotide diversity; Statistics; Evolutionary biology; Statistical physics; Genetics; Demography; Mathematics; Physics; Genotype; Virology; Haplotype","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002956585,0.0001734267,0.0005744107,0.001046825,0.0004953461,0.001047803,0.0006577868,0.0007544477,0.0002027945],"category_scores_gemma":[0.01116074,0.0003676351,0.000401231,0.0006181517,0.0009087723,0.0009100327,0.0004823902,0.0005592414,0.00008978664],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006953868,"about_ca_system_score_gemma":0.0004238643,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009031843,"about_ca_topic_score_gemma":0.001398942,"domain_scores_codex":[0.9991488,0.0003292181,0.00009225382,0.0002924018,0.000086017,0.00005119013],"domain_scores_gemma":[0.9951521,0.003447647,0.0005912998,0.0004586609,0.0002314592,0.000118866],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0006843868,0.000145563,0.4034302,0.000334425,0.001168604,0.001014636,0.001238125,0.4386972,0.08405609,0.02433225,0.0007213574,0.04417711],"study_design_scores_gemma":[0.00009642167,0.0003856985,0.1433249,0.00009374556,0.000459396,0.001082921,0.000334886,0.7969122,0.01750195,0.03780988,0.001828689,0.0001692561],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9563488,0.0003169848,0.04225745,0.0000923342,0.00002289891,0.00001029199,0.00008271805,0.00005946723,0.0008089642],"genre_scores_gemma":[0.990787,0.000171579,0.008742354,0.00002998305,0.00001000418,0.00002336829,0.00008700583,0.00001105822,0.0001375857],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002956585,"threshold_uncertainty_score":0.01563609,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008551454566374279,"score_gpt":0.248430080756554,"score_spread":0.2398786261901797,"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."}}