{"id":"W3040195586","doi":"10.1101/2020.07.03.186684","title":"Genome reduction is associated with bacterial pathogenicity across different scales of temporal and ecological divergence","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Streptococcal Infections and Treatments","field":"Medicine","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Biotechnology and Biological Sciences Research Council; Newnham College, University of Cambridge; Royal Society; University of Cambridge; Wellcome Trust","keywords":"Biology; Genome; Pathogenicity island; Pathogenicity; Bacterial genome size; Genetics; Genome size; Gene; Microbiology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002379012,0.0001240881,0.0002723534,0.0008305858,0.0001747565,0.0004197845,0.0001480919,0.0002738457,0.001547658],"category_scores_gemma":[0.0008244416,0.0001100627,0.0002062004,0.0007009396,0.0003401379,0.0002458369,0.0004152873,0.0004622058,0.0001894233],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001573015,"about_ca_system_score_gemma":0.0001193631,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006144166,"about_ca_topic_score_gemma":0.000640266,"domain_scores_codex":[0.9997203,0.00005439864,0.00001640942,0.00008849362,0.00006813001,0.00005221169],"domain_scores_gemma":[0.9989675,0.0002383998,0.0004872686,0.00009389532,0.0001068937,0.0001059981],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0006951602,0.00007502888,0.2402874,0.00008066607,0.0001193016,0.0001517931,0.0002067321,0.0003452665,0.7474737,0.0001788496,0.0001370424,0.01024915],"study_design_scores_gemma":[0.000003141782,0.0001456295,0.9875374,0.000003374146,0.00001596759,0.0002170359,0.0001695524,0.0003332736,0.01107531,0.0001585048,0.0003353745,0.000005417937],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983141,0.0003238016,0.0006307243,0.00004143,0.000002945855,0.000003258609,0.0002148498,0.00001687247,0.0004520073],"genre_scores_gemma":[0.9990516,0.00007547107,0.0003366596,0.0000270876,0.000004438384,0.000005627808,0.000279172,0.000007356823,0.0002126289],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001547658,"threshold_uncertainty_score":0.005177438,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02422569288631133,"score_gpt":0.2518038549023044,"score_spread":0.2275781620159931,"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."}}