{"id":"W4411814605","doi":"10.1002/em.70020","title":"Transferability, Reproducibility and Sensitivity of Mutation Quantification by Duplex Sequencing","year":2025,"lang":"en","type":"article","venue":"Environmental and Molecular Mutagenesis","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa; Health Canada","funders":"Eunice Kennedy Shriver National Institute of Child Health and Human Development","keywords":"Transferability; Reproducibility; Duplex (building); Computational biology; Genetics; Chromatography; Biology; Chemistry; DNA; Statistics; Mathematics","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":[0.0006093854,0.0001156557,0.0001295481,0.00002540049,0.00005521545,0.000008546007,0.00002972006,0.00008701903,0.000004957197],"category_scores_gemma":[0.00005900411,0.0001247238,0.00004659247,0.00003526857,0.0001483504,0.000005322779,0.00007192206,0.00003265476,6.327735e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002252972,"about_ca_system_score_gemma":0.00001499243,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004381081,"about_ca_topic_score_gemma":0.000007676299,"domain_scores_codex":[0.998772,0.0001656984,0.0001829676,0.0006924355,0.00008625597,0.0001006938],"domain_scores_gemma":[0.9994403,0.00001301676,0.00004156674,0.0004599701,0.000007220549,0.00003789787],"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":[0.00003318652,0.00007264945,0.002755303,0.00004113002,0.00003625108,0.000003633069,0.00004799733,0.00002063775,0.9878044,0.0000499575,0.00001061034,0.009124304],"study_design_scores_gemma":[0.0002091643,0.00009037344,0.01333,0.000006248804,0.00004256071,0.00001428953,0.0001228038,0.0003507528,0.9854661,0.000116676,0.0001458946,0.0001051342],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.96806,0.001155433,0.03032486,0.0001075813,0.00002737748,0.0002338148,0.00004789973,0.000008199443,0.00003482189],"genre_scores_gemma":[0.9988048,0.0001701544,0.0006367422,0.0001047811,0.000005212213,0.00001341432,0.0001534446,0.000009589334,0.0001018433],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03074481,"threshold_uncertainty_score":0.5086088,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006501075815676714,"score_gpt":0.2200600108136471,"score_spread":0.2135589349979704,"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."}}