{"id":"W2108125433","doi":"10.1371/journal.pone.0049803","title":"Yersinia pestis: New Evidence for an Old Infection","year":2012,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Yersinia bacterium, plague, ectoparasites research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":43,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"Social Sciences and Humanities Research Council of Canada","keywords":"Yersinia pestis; Genome; Biology; Evolutionary biology; Plague (disease); Phylogenetic tree; Ancient DNA; Phylogenetics; Genomics; Genetics; Genealogy; Geography; History; Gene; Demography; Virulence; Archaeology","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":[0.000246122,0.0001152699,0.0001258138,0.0000491469,0.00007436224,0.0000359221,0.000138081,0.0001394734,0.00005695596],"category_scores_gemma":[0.0005258028,0.0001226537,0.00004631421,0.00008575149,0.0000357083,0.00003095542,0.00006224839,0.00008877715,0.0000797207],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003136254,"about_ca_system_score_gemma":0.0000851071,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001373794,"about_ca_topic_score_gemma":0.00007035013,"domain_scores_codex":[0.9989967,0.00005569127,0.0001268144,0.0002559063,0.0001792539,0.000385651],"domain_scores_gemma":[0.9992033,0.00004225664,0.00004617885,0.0003458251,0.0001104027,0.0002520322],"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":[0.0001648754,0.0004235771,0.1366431,0.00005742729,0.0000654914,1.822387e-7,0.00004949281,0.000001482994,0.8600369,0.00001179322,0.001897341,0.000648351],"study_design_scores_gemma":[0.0004766137,0.001085065,0.15478,0.00009425227,0.00008171768,0.000007165341,0.000008095898,0.0000830922,0.8397928,0.00001754086,0.003344774,0.0002288476],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9978129,0.0006797999,0.0005666647,0.000186406,0.00007914237,0.000389545,0.00001128931,0.00002553247,0.0002486996],"genre_scores_gemma":[0.9920055,0.0002340087,0.004197631,0.0001495186,0.001137533,0.00004680615,0.000117765,0.00002753532,0.002083754],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02024413,"threshold_uncertainty_score":0.5001675,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1834654772306488,"score_gpt":0.3600452256113286,"score_spread":0.1765797483806798,"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."}}