{"id":"W2123152317","doi":"10.1016/s1473-3099(13)70323-2","title":"Yersinia pestis and the Plague of Justinian 541–543 AD: a genomic analysis","year":2014,"lang":"en","type":"article","venue":"The Lancet Infectious Diseases","topic":"Yersinia bacterium, plague, ectoparasites research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":487,"is_retracted":false,"has_abstract":false,"ca_institutions":"McMaster University","funders":"National Health and Medical Research Council; Social Sciences and Humanities Research Council of Canada; Canada Research Chairs; Ant Group; Michael G. DeGroote Institute for Infectious Disease Research, McMaster University; Northern Arizona University","keywords":"Yersinia pestis; Plague (disease); Phylogenetic tree; Pandemic; Biology; Genome; Ancient DNA; Phylogenetics; Extant taxon; Virology; Evolutionary biology; Genetics; Gene; Geography; Coronavirus disease 2019 (COVID-19); Archaeology; Virulence; Demography; Infectious disease (medical specialty); Medicine","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003992516,0.000153158,0.0003628029,0.00007716806,0.0001909366,0.00005271872,0.0003182994,0.00007019343,0.00003763678],"category_scores_gemma":[0.0004273725,0.00009464716,0.0001690793,0.0002668797,0.0005340834,0.000004595274,0.0001803723,0.0001178767,0.0000129982],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000013069,"about_ca_system_score_gemma":0.00005320879,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000189332,"about_ca_topic_score_gemma":0.0003648649,"domain_scores_codex":[0.9987518,0.0003484822,0.0001865744,0.0002747166,0.0001489964,0.0002893978],"domain_scores_gemma":[0.9988292,0.0002263731,0.00012088,0.0006523888,0.00007708262,0.00009403398],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001480826,0.0001722841,0.9261146,0.0001373249,0.001801461,0.000003563683,0.000440105,0.0009391018,0.06094067,0.0003937479,0.003219635,0.004356669],"study_design_scores_gemma":[0.002867779,0.0003123269,0.9821376,0.00001547166,0.001222052,0.00003115752,0.0000808007,0.001302343,0.002724285,0.0003116505,0.008738535,0.0002560054],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9963834,0.001140269,0.0002442208,0.000506738,0.00005773115,0.0002247481,0.0001202524,0.00002428244,0.001298368],"genre_scores_gemma":[0.9985388,0.0005224345,0.00002665776,0.0003757973,0.0002960206,0.0000301439,0.00008541527,0.00001648626,0.0001082343],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05821639,"threshold_uncertainty_score":0.3859599,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008133148150019243,"score_gpt":0.2592276068898154,"score_spread":0.2510944587397961,"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."}}