{"id":"W4416821004","doi":"10.1101/2025.11.24.690122","title":"Transcription-induced mutation and ancient gBGC shape the evolution of human transcriptional start sites","year":2025,"lang":"","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Somatic hypermutation; Mutation; Gene; Mutation rate; Gene conversion; Population; Intergenic region; Transcription (linguistics); Proofreading","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":[0.0002716665,0.0001437142,0.0001318392,0.0002520122,0.0001859215,0.0003371426,0.0002170596,0.0002529959,0.0007972232],"category_scores_gemma":[0.0007281517,0.0002031021,0.0002072263,0.0002213617,0.0003831844,0.0002163604,0.0001927798,0.0002866416,0.0001608325],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000400924,"about_ca_system_score_gemma":0.0002458554,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002531716,"about_ca_topic_score_gemma":0.002932193,"domain_scores_codex":[0.9999273,0.00001871433,0.000003311476,0.00002592957,0.00001419473,0.00001048689],"domain_scores_gemma":[0.9998726,0.00005584518,0.00002416541,0.00001708255,0.00001251628,0.00001782095],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0004737123,0.000070443,0.1571041,0.0001106423,0.0001334667,0.0005363573,0.0005436977,0.4032713,0.408532,0.009201844,0.0002810949,0.01974135],"study_design_scores_gemma":[0.000035962,0.00007973574,0.09892161,0.00001668325,0.00005228594,0.0002699744,0.0001402477,0.859436,0.03441376,0.005731179,0.0008704207,0.00003215114],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9899631,0.0000523811,0.009393483,0.00002267611,0.000002813616,0.000004219507,0.00005009124,0.00006034193,0.0004508648],"genre_scores_gemma":[0.9975121,0.00003017051,0.002286168,0.000006434015,0.000001172811,0.000003833782,0.00004427243,0.00001992029,0.00009589246],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002531716,"threshold_uncertainty_score":0.00503397,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.011925443543184,"score_gpt":0.2173989919564416,"score_spread":0.2054735484132576,"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."}}