{"id":"W2123209128","doi":"10.1093/molbev/msq245","title":"Insight into Evolution of Bordetella pertussis from Comparative Genomic Analysis: Evidence of Vaccine-Driven Selection","year":2010,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Bacterial Infections and Vaccines","field":"Immunology and Microbiology","cited_by":85,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Health and Medical Research Council; Centers for Disease Control and Prevention; Medical Research Council; Public Health Agency; Public Health Agency of Canada","keywords":"Biology; Bordetella pertussis; Selection (genetic algorithm); Positive selection; Evolutionary biology; Convergent evolution; Experimental evolution; Genetics; Computational biology; Virology; Phylogenetics; Gene; Bacteria","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":[0.0003189198,0.0002395228,0.0002793337,0.0009013016,0.0002219218,0.0003803991,0.0002576669,0.000394132,0.0006817848],"category_scores_gemma":[0.0006011612,0.0001546372,0.0002808799,0.0008774741,0.0002699052,0.0003159588,0.0002999402,0.0004554797,0.0001791402],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003136188,"about_ca_system_score_gemma":0.0002158531,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009355579,"about_ca_topic_score_gemma":0.001143535,"domain_scores_codex":[0.9998522,0.000030034,0.000009110579,0.00004683156,0.00003413388,0.00002780779],"domain_scores_gemma":[0.9997683,0.0001005163,0.00004710991,0.00001837049,0.00002360613,0.00004210986],"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":[0.0003092687,0.00006559359,0.07504163,0.0002298498,0.00009976763,0.0005551986,0.0005360527,0.000943969,0.9032471,0.00060493,0.0001329193,0.01823376],"study_design_scores_gemma":[0.0000140564,0.0003116671,0.966585,0.00004474699,0.0001333919,0.001674395,0.0006879998,0.003695962,0.02205444,0.0008837496,0.003891264,0.00002328208],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952669,0.001219401,0.00186172,0.0001668509,0.000006949244,0.000006276628,0.000377937,0.00001862625,0.00107533],"genre_scores_gemma":[0.9950907,0.001363902,0.002287219,0.0001502165,0.00002395114,0.00001019356,0.0008716495,0.00001125076,0.000190828],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009355579,"threshold_uncertainty_score":0.002280831,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009547886611226493,"score_gpt":0.2731970539253902,"score_spread":0.2636491673141637,"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."}}