{"id":"W4391528576","doi":"10.1101/cshperspect.a041465","title":"Petabase-Scale Homology Search for Structure Prediction","year":2024,"lang":"en","type":"article","venue":"Cold Spring Harbor Perspectives in Biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; Agence Nationale de la Recherche","keywords":"Library science; Biology; Evolutionary biology; Regional science; Geography","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":[0.0001586849,0.0001537281,0.0001693775,0.0001136041,0.00007527098,0.00001821037,0.0001492166,0.0001915095,0.00001244887],"category_scores_gemma":[0.00003651108,0.0001480477,0.00008889701,0.00009930501,0.0001842221,0.000001133735,0.0001166099,0.0001386995,0.00000234607],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005944165,"about_ca_system_score_gemma":0.000077244,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003265514,"about_ca_topic_score_gemma":0.00007649175,"domain_scores_codex":[0.9988509,0.00005420913,0.0001591316,0.0005831416,0.00003546256,0.0003171286],"domain_scores_gemma":[0.9996081,0.00004265108,0.0000192952,0.0002265781,0.00006264461,0.00004072902],"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":[0.00005841394,0.00002815245,0.01781246,0.00003390592,0.00008941189,0.000002393507,0.0002742311,0.00009598587,0.9506464,0.03069443,0.00008479196,0.0001794089],"study_design_scores_gemma":[0.001902704,0.00206373,0.2169671,0.0000729251,0.00009073444,0.00001898159,0.00153489,0.002130435,0.6322197,0.001761953,0.1403547,0.0008821522],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9754303,0.0205927,0.002266034,0.0002374772,0.00063708,0.0003450012,0.0002649367,0.00001631466,0.0002102053],"genre_scores_gemma":[0.9966194,0.0009090623,0.00164642,0.00004066919,0.0005811137,0.00008033303,0.0000112459,0.00002755045,0.00008418525],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3184267,"threshold_uncertainty_score":0.6037211,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01263366839941697,"score_gpt":0.2784567480320702,"score_spread":0.2658230796326532,"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."}}