{"id":"W2997904090","doi":"10.1080/22221751.2019.1701954","title":"Return of the founder Chikungunya virus to its place of introduction into Brazil is revealed by genomic characterization of exanthematic disease cases","year":2019,"lang":"en","type":"letter","venue":"Emerging Microbes & Infections","topic":"Mosquito-borne diseases and control","field":"Medicine","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Horizon 2020 Framework Programme; Ministério da Saúde; Fundação Carlos Chagas Filho de Amparo à Pesquisa do Estado do Rio de Janeiro; Conselho Nacional de Desenvolvimento Científico e Tecnológico; University of Oxford; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior; Pan American Health Organization; International Development Research Centre","keywords":"Chikungunya; Transmission (telecommunications); Herd immunity; Biology; Genotype; Epidemiology; Virology; Disease; Persistence (discontinuity); Molecular epidemiology; Outbreak; Geography; Evolutionary biology; Genetics; Medicine; Vaccination; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0001529969,0.0003586902,0.0007867632,0.000325021,0.0001334509,0.00001831634,0.0002168918,0.0002319293,0.0007300397],"category_scores_gemma":[0.0003391405,0.0002974627,0.0004856665,0.0004806049,0.00009856006,0.0001049929,0.0001146189,0.0004834949,0.00002610162],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001730998,"about_ca_system_score_gemma":0.0002757017,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003380354,"about_ca_topic_score_gemma":0.00002678023,"domain_scores_codex":[0.9978825,0.0001588453,0.0008660177,0.0004885172,0.0003264999,0.000277636],"domain_scores_gemma":[0.9975723,0.0001168375,0.0008615442,0.0009824251,0.0003828003,0.00008408636],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001281775,0.0002416354,0.002511957,0.002468117,0.0003479789,0.000003070156,0.000445772,0.00002555081,0.6386651,0.000007183837,0.354973,0.000182382],"study_design_scores_gemma":[0.002909407,0.0007476432,0.03472523,0.003909948,0.006650961,0.0001397547,0.000135213,0.0004029562,0.1029838,0.00006804206,0.8462243,0.00110273],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.864637,0.001032335,0.0003657702,0.1300297,0.001088764,0.001807395,0.0009548752,0.00004022972,0.00004391928],"genre_scores_gemma":[0.9213172,0.0004741987,0.0000581696,0.06280685,0.003570799,0.0001914484,0.001761703,0.0001888656,0.009630828],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5356814,"threshold_uncertainty_score":0.9999477,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006853813118186475,"score_gpt":0.2523659952129372,"score_spread":0.2455121820947507,"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."}}