{"id":"W2036316917","doi":"10.1371/journal.pgen.1001145","title":"The Genome of a Pathogenic Rhodococcus: Cooptive Virulence Underpinned by Key Gene Acquisitions","year":2010,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Infectious Disease Case Reports and Treatments","field":"Medicine","cited_by":167,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph","funders":"Biotechnology and Biological Sciences Research Council; Directorate for Biological Sciences; Horserace Betting Levy Board; Dorothy Russell Havemeyer Foundation; Grayson-Jockey Club Research Foundation","keywords":"Biology; Virulence; Pathogenicity island; Genome; Plasmid; Genetics; Gene; Genomic island; Rhodococcus equi; Microbiology; Horizontal gene transfer","routes":{"ca_aff":true,"ca_fund":false,"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":[0.00008108105,0.0001506131,0.0001999059,0.00003881304,0.0002018495,0.0000212178,0.00007648665,0.00008475433,0.0001166612],"category_scores_gemma":[0.00007035863,0.0001051181,0.0001170563,0.0001401341,0.0001852249,0.00002067227,0.00004391919,0.00014397,0.00003504917],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004747115,"about_ca_system_score_gemma":0.0001879824,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006226078,"about_ca_topic_score_gemma":0.00001231913,"domain_scores_codex":[0.9989389,0.00002898147,0.0002816879,0.0002181601,0.0002522168,0.0002800526],"domain_scores_gemma":[0.9987506,0.00007235228,0.0001488707,0.0005165552,0.0003148393,0.0001968154],"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":[0.00006551645,0.0008725061,0.01179253,0.00003705804,0.0005168641,0.0001180306,0.0001306272,0.000006939428,0.9854004,0.0003683211,0.0001536937,0.0005374753],"study_design_scores_gemma":[0.004060242,0.00155133,0.05870632,0.0001011293,0.002828731,0.0008105391,0.0003304409,0.001189909,0.9178608,0.001895526,0.01002606,0.0006389839],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9950194,0.001741853,0.0001260077,0.0001901537,0.0001272194,0.0005309035,0.0002292614,0.00003784467,0.0019973],"genre_scores_gemma":[0.9983603,0.0004565754,0.0005176576,0.0001999337,0.00009516953,0.00006480476,0.00009406181,0.00002812535,0.0001833691],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06753965,"threshold_uncertainty_score":0.4286593,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01034004033660459,"score_gpt":0.2488478099536566,"score_spread":0.2385077696170521,"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."}}