{"id":"W2032638170","doi":"10.1128/mbio.01074-14","title":"Global Population Structure and Evolution of Bordetella pertussis and Their Relationship with Vaccination","year":2014,"lang":"en","type":"article","venue":"mBio","topic":"Bacterial Infections and Vaccines","field":"Immunology and Microbiology","cited_by":315,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"National Medical Research Council; National Institute of General Medical Sciences; Chinese University of Hong Kong; Wellcome Trust; University of Hong Kong; Rijksinstituut voor Volksgezondheid en Milieu; National Health and Medical Research Council","keywords":"Bordetella pertussis; Biology; Comparative genomics; Host adaptation; Pertussis toxin; Vaccination; Virulence; Whooping cough; Gene; Pathogen; Immunity; Population; Virology; Microbiology; Genetics; Genome; Genomics; Immune system; Bacteria; Medicine; G protein","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":[0.00005466463,0.00006346124,0.00009074315,0.00003634583,0.0001070494,0.000008518747,0.00001734436,0.0001091038,0.0000462227],"category_scores_gemma":[0.00003667911,0.00004358671,0.000009717491,0.00008243151,0.00002049079,0.00007210836,0.00001255981,0.00003965683,9.862198e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001981225,"about_ca_system_score_gemma":0.000005396344,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003931388,"about_ca_topic_score_gemma":0.0003365779,"domain_scores_codex":[0.9996782,0.00006216155,0.0000914823,0.0001019296,0.00000549282,0.00006073851],"domain_scores_gemma":[0.9997818,0.00003685369,0.00006168507,0.00007164304,0.00004095884,0.000007091072],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00004814195,0.00001024078,0.965031,0.00001188169,0.00001754521,8.007127e-9,0.00007062697,0.000004892234,0.02071097,0.006338785,0.00003231372,0.007723625],"study_design_scores_gemma":[0.0004265743,0.0001166633,0.9949479,0.000008982855,0.00001666732,0.0000368698,0.00004057682,0.00003877835,0.001509311,0.00237153,0.0004324737,0.00005363664],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9985138,0.0003593527,0.0006579798,0.00008113636,0.0001152944,0.00007039749,0.00002235752,0.00001721116,0.0001624568],"genre_scores_gemma":[0.9997954,0.000006049621,0.00006429386,0.000004172245,0.00001803664,0.000001456096,0.00005757308,0.000003064216,0.00004995597],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02991696,"threshold_uncertainty_score":0.1777415,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005439137704587907,"score_gpt":0.2089743847504663,"score_spread":0.2035352470458784,"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."}}