{"id":"W4410443544","doi":"10.1101/2025.05.13.653297","title":"Empowering medaka fish biology with versatile genomic resources in MedakaBase","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Identification and Quantification in Food","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute for Basic Biology; Institute of Genetics","keywords":"Fish <Actinopterygii>; Biology; Computational biology; Evolutionary biology; Fishery","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":[0.002130182,0.001587725,0.00134807,0.00417252,0.001068072,0.00274327,0.002818667,0.001061002,0.01244],"category_scores_gemma":[0.003809595,0.001272302,0.001483942,0.003152362,0.00058998,0.003477741,0.004772841,0.001837888,0.01823037],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007307892,"about_ca_system_score_gemma":0.001766582,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00397936,"about_ca_topic_score_gemma":0.00473303,"domain_scores_codex":[0.9991474,0.00008211843,0.0001272262,0.0003448605,0.000198929,0.0000995138],"domain_scores_gemma":[0.9981192,0.0003213179,0.0002595512,0.0006198002,0.0003866586,0.0002934855],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.005839448,0.0006559395,0.02280663,0.00641382,0.000969076,0.003026928,0.003636984,0.004775867,0.2766902,0.01461586,0.3506613,0.309908],"study_design_scores_gemma":[0.0004514407,0.0003438729,0.02143529,0.0007676285,0.0005936875,0.001159069,0.0006692833,0.009694714,0.08550959,0.009559414,0.8693267,0.0004893115],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.07204194,0.004233275,0.1916864,0.002151402,0.001115799,0.001548669,0.3405962,0.3652515,0.02137487],"genre_scores_gemma":[0.05289586,0.001556073,0.236623,0.0008063992,0.0001392842,0.001338839,0.6820792,0.0182755,0.006285845],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.01244,"threshold_uncertainty_score":0.0416159,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01217689968205,"score_gpt":0.2507205766772294,"score_spread":0.2385436769951794,"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."}}