{"id":"W4396815341","doi":"10.1101/2024.05.06.592789","title":"Are the Next-Generation Pathogenicity Predictors Applicable to Cancer?","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"","keywords":"Pathogenicity; Pathogenicity island; Cancer; Medicine; Biology; Computational biology; Computer science; Internal medicine; Microbiology; Genetics; Salmonella; Bacteria","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":[0.008893024,0.0017696,0.001732998,0.002059143,0.0007532627,0.002881784,0.001879595,0.001807052,0.003671787],"category_scores_gemma":[0.02223252,0.000768643,0.001429006,0.00118907,0.00139051,0.003443819,0.002308197,0.004448076,0.003809333],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007716332,"about_ca_system_score_gemma":0.002863028,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002692778,"about_ca_topic_score_gemma":0.003693701,"domain_scores_codex":[0.9956632,0.001764294,0.0001711652,0.0008455,0.001158024,0.000397752],"domain_scores_gemma":[0.9858349,0.008484458,0.0009628436,0.001690094,0.002247693,0.0007799792],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.002015232,0.0006885724,0.1367739,0.00340923,0.001265033,0.001179403,0.000456391,0.1161803,0.04443678,0.01726076,0.1062685,0.570066],"study_design_scores_gemma":[0.0002670604,0.001357794,0.02582634,0.001249955,0.0006630771,0.002236374,0.00043346,0.6831583,0.06568475,0.1296704,0.08910212,0.0003504089],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2953796,0.07955931,0.5085924,0.04154948,0.005186022,0.0005509002,0.01650179,0.03724037,0.01544005],"genre_scores_gemma":[0.7835177,0.0128927,0.1776231,0.005363813,0.001192367,0.0003946296,0.01363459,0.001746429,0.003634772],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.008893024,"threshold_uncertainty_score":0.0470314,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02362694923608305,"score_gpt":0.2360910080038583,"score_spread":0.2124640587677753,"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."}}