{"id":"W4408403336","doi":"10.1101/2025.03.11.642547","title":"Assessment of ecological fidelity of human microbiome-associated mice in observational studies and an interventional trial","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; University of Guelph; Toronto General Hospital; University Health Network; University of Toronto","funders":"","keywords":"Observational study; Microbiome; Fidelity; Human microbiome; Computational biology; Medicine; Ecology; Biology; Bioinformatics; Internal medicine; Computer science","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":[0.03176284,0.0006224701,0.001430852,0.00061176,0.0009697173,0.00186808,0.0008805547,0.00146145,0.00495138],"category_scores_gemma":[0.03525442,0.0004470987,0.002334129,0.001330173,0.001229137,0.001255812,0.001701189,0.001583596,0.0007129286],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006289138,"about_ca_system_score_gemma":0.00153712,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004350834,"about_ca_topic_score_gemma":0.001004854,"domain_scores_codex":[0.9706931,0.02016932,0.002564973,0.0036071,0.002098402,0.0008671673],"domain_scores_gemma":[0.9465836,0.0172802,0.02009024,0.01026636,0.003379415,0.002400196],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.111096,0.005326869,0.7090639,0.01056134,0.0314184,0.0007564031,0.0015743,0.002050394,0.01865649,0.006119485,0.01790071,0.08547557],"study_design_scores_gemma":[0.01259685,0.04328558,0.8339984,0.00348405,0.02150571,0.001282485,0.001134141,0.005001259,0.009134208,0.009022704,0.05924438,0.0003102476],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9006364,0.01776096,0.04452819,0.003316597,0.001521946,0.006827024,0.01499826,0.0003467525,0.01006391],"genre_scores_gemma":[0.9702433,0.001062174,0.01294688,0.001892538,0.0003464998,0.008953305,0.003539515,0.00009268698,0.0009231089],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03176284,"threshold_uncertainty_score":0.16798,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06044966977390168,"score_gpt":0.3627220725226211,"score_spread":0.3022724027487194,"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."}}