{"id":"W1999114258","doi":"10.4161/viru.25180","title":"Prediction of molecular mimicry candidates in human pathogenic bacteria","year":2013,"lang":"en","type":"article","venue":"Virulence","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":94,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo","funders":"","keywords":"Biology; Molecular mimicry; Virulence; Pathogen; Proteome; Mimicry; Genetics; Eukaryote; Microbiology; Proteomics; Human pathogen; Genome; Computational biology; Bacteria; Gene; Immune system","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":[0.00005824233,0.00008374117,0.00009470525,0.00003070315,0.00002362242,0.000006790591,0.0001136424,0.00006045723,0.00002659561],"category_scores_gemma":[0.00001367333,0.00008202828,0.0000367756,0.00004895264,0.00005301566,9.09872e-7,0.00007611754,0.00003139965,0.000006725349],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000005754186,"about_ca_system_score_gemma":0.00001690579,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001743614,"about_ca_topic_score_gemma":0.00002802598,"domain_scores_codex":[0.9994372,0.00002510703,0.000169192,0.0001870692,0.00004830865,0.0001331123],"domain_scores_gemma":[0.9996781,0.000003133926,0.00005153171,0.0001989129,0.00004093989,0.00002739149],"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":[0.000004640422,0.0000224531,0.03111513,0.00001013515,0.00001353402,5.858795e-7,0.00003570218,0.00001880479,0.9681599,0.00002447033,0.0001054854,0.0004891686],"study_design_scores_gemma":[0.0001810917,0.0001167929,0.2475647,0.00001096035,0.000005176296,0.00000185428,0.00002582261,0.00002261626,0.7512635,0.0002413527,0.0004930947,0.00007305013],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984571,0.0009017166,0.00005293522,0.00002163469,0.00005892938,0.000138049,0.00004014259,0.000001707366,0.0003277629],"genre_scores_gemma":[0.9991574,0.0002620734,0.0003763062,0.00005359648,0.00003091522,0.00003346063,0.00002724397,0.000008778134,0.00005021516],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2168964,"threshold_uncertainty_score":0.3345016,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008766426407948552,"score_gpt":0.2101240052670407,"score_spread":0.2013575788590921,"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."}}