{"id":"W3035486957","doi":"10.1038/s41598-020-66012-x","title":"A treponemal genome from an historic plague victim supports a recent emergence of yaws and its presence in 15th century Europe","year":2020,"lang":"en","type":"article","venue":"Scientific Reports","topic":"Yersinia bacterium, plague, ectoparasites research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":59,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Social Sciences and Humanities Research Council of Canada; Max-Planck-Institut für Menschheitsgeschichte; Max-Planck-Gesellschaft; Deutscher Akademischer Austauschdienst; European Commission","keywords":"Plague (disease); Yersinia pestis; Syphilis; Disease; Treponema; Ancient DNA; Virology; Pathogen; Biology; Genome; Identification (biology); Infectious disease (medical specialty); Geography; Medicine; Genetics; Archaeology; Gene; Ecology; Environmental health; Pathology; Virulence","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":[0.0001036066,0.0001114612,0.0001428408,0.0005175188,0.0002858955,0.0003673742,0.0001097663,0.0002955917,0.002078267],"category_scores_gemma":[0.0002426265,0.0000789679,0.0002300134,0.0003698773,0.0002105654,0.0001079006,0.0003016085,0.0002369592,0.0002541879],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001108606,"about_ca_system_score_gemma":0.00009148772,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001033961,"about_ca_topic_score_gemma":0.001461479,"domain_scores_codex":[0.9999478,0.000005865148,0.0000034413,0.00001914726,0.000008943496,0.0000148153],"domain_scores_gemma":[0.9998848,0.00003371422,0.00002906377,0.00001299044,0.00001754343,0.00002185756],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0006848293,0.00008861322,0.1232888,0.000157104,0.0001105163,0.004435244,0.002157971,0.0002833363,0.8540744,0.0004711267,0.0003037734,0.01394445],"study_design_scores_gemma":[0.00001167293,0.0002395122,0.948342,0.00005222189,0.00007184312,0.007133969,0.001735945,0.0005664733,0.03341852,0.0001956765,0.008218116,0.00001410711],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9971852,0.0002440711,0.0005690435,0.00004810735,0.00001559684,0.000006236907,0.0009626872,0.00001607732,0.0009530109],"genre_scores_gemma":[0.9963807,0.0002248099,0.0009764163,0.00005526538,0.00001044128,0.000004005557,0.001643759,0.000009874258,0.0006947484],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002078267,"threshold_uncertainty_score":0.006952465,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02010870220150434,"score_gpt":0.2746315904278631,"score_spread":0.2545228882263587,"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."}}