{"id":"W2093533627","doi":"10.1101/gr.164327.113","title":"A unified model for yeast transcript definition","year":2013,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":20,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Biology; Computational biology; Transcription (linguistics); Genetics; Terminator (solar); Promoter; Genome; Gene; General transcription factor; Transcription factor; Enhancer; Bacterial transcription; Gene expression","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0003449307,0.00008432936,0.00008056017,0.00006307381,0.0001400813,0.00005532323,0.0002182183,0.0001133478,0.00003944323],"category_scores_gemma":[0.00003282494,0.000084092,0.00006963884,0.00007662444,0.00006549862,0.000002889089,0.00006425149,0.00009619598,0.0000784658],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002473359,"about_ca_system_score_gemma":0.0001148179,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002515262,"about_ca_topic_score_gemma":0.00002537483,"domain_scores_codex":[0.9990389,0.00003743688,0.0001322132,0.0002562599,0.0001452935,0.0003898936],"domain_scores_gemma":[0.9993267,0.000009311284,0.00001855945,0.0002857482,0.0002633588,0.00009631541],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00002707299,0.00004225156,0.00001660218,0.00003653353,0.00001981077,2.418403e-7,0.00009809637,0.0005436847,0.9948642,0.001889009,0.001249755,0.001212784],"study_design_scores_gemma":[0.004962563,0.002124029,0.005048336,0.00003783357,0.00004416605,0.00003820812,0.001569259,0.6947905,0.08855795,0.1217081,0.07965398,0.001465115],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9388605,0.0003217063,0.05464882,0.0003507196,0.00003538937,0.0007249783,0.0001129756,0.000009849873,0.004935095],"genre_scores_gemma":[0.9850131,0.0001652657,0.01122331,0.00006904235,0.0001066087,0.0002916591,0.0003618839,0.00002869628,0.002740418],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9063062,"threshold_uncertainty_score":0.3429172,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08164563180562455,"score_gpt":0.3132777769791137,"score_spread":0.2316321451734891,"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."}}