{"id":"W4404233190","doi":"10.1101/2024.11.11.24316049","title":"Comprehensive baseline ctDNA characterization in two biomarker-selected Phase 1/2 studies using genomic and methylation profiling","year":2024,"lang":"en","type":"preprint","venue":"medRxiv","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre","funders":"","keywords":"Profiling (computer programming); Biomarker; Methylation; Computational biology; DNA methylation; Biology; Genetics; Gene; Computer science; Gene expression","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":[0.001274371,0.0003406353,0.0003919706,0.0005136332,0.0002218043,0.0005577918,0.0001979736,0.0005106961,0.001814179],"category_scores_gemma":[0.001251774,0.0001828252,0.0002041301,0.0003630524,0.0002443977,0.0002398842,0.0003169499,0.0004675793,0.0004665912],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002527546,"about_ca_system_score_gemma":0.0003359149,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000248949,"about_ca_topic_score_gemma":0.0004055106,"domain_scores_codex":[0.9995192,0.0001366402,0.00003559187,0.0001416806,0.0001113999,0.00005547225],"domain_scores_gemma":[0.9994104,0.0001267549,0.0001281823,0.00008619908,0.000142341,0.0001060535],"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":[0.008644938,0.0007902267,0.1112578,0.0002975712,0.0002327378,0.0005080344,0.0003762674,0.001798123,0.7979851,0.0003754276,0.002152865,0.07558088],"study_design_scores_gemma":[0.000812495,0.02142753,0.432577,0.00007407071,0.0005997005,0.004244098,0.0002813195,0.003410021,0.506427,0.0009708924,0.0291192,0.00005669003],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.983023,0.003231963,0.006666014,0.0002412713,0.00005436332,0.00038026,0.003543653,0.0001712259,0.002688224],"genre_scores_gemma":[0.9855322,0.0005974177,0.005426522,0.0003981585,0.00003396209,0.000324214,0.005825054,0.00006449047,0.001797911],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001814179,"threshold_uncertainty_score":0.006739616,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05267332488645317,"score_gpt":0.3642220947252118,"score_spread":0.3115487698387586,"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."}}