{"id":"W4225422943","doi":"10.1038/s41698-022-00268-6","title":"DNA-based copy number analysis confirms genomic evolution of PDX models","year":2022,"lang":"en","type":"article","venue":"npj Precision Oncology","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":31,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Congressionally Directed Medical Research Programs; Office of Research Infrastructure Programs, National Institutes of Health; National Cancer Institute; National Institutes of Health; V Foundation for Cancer Research; Israel Cancer Research Fund; Azrieli Foundation; Tel Aviv University; Israel Cancer Association","keywords":"Biology; Genetics; Genome; Genome instability; Somatic evolution in cancer; Genomics; Genome evolution; Cancer; Copy-number variation; Evolutionary biology; DNA; Computational biology; Gene; DNA damage","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003111665,0.0001409851,0.0002120778,0.0007137216,0.0001493835,0.0004863991,0.0002255823,0.0002925427,0.001767049],"category_scores_gemma":[0.001026893,0.0001258938,0.000169586,0.0004716049,0.0002635731,0.0002564163,0.0003510651,0.0004236682,0.0003702886],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003400405,"about_ca_system_score_gemma":0.00009108172,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004865582,"about_ca_topic_score_gemma":0.0006430133,"domain_scores_codex":[0.9997308,0.00003295699,0.00001644329,0.00009163506,0.00009935639,0.00002873447],"domain_scores_gemma":[0.9995085,0.0001610545,0.0001441791,0.00007481204,0.00006413175,0.00004739361],"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":[0.0002407075,0.00002398074,0.02835905,0.00007146549,0.00004532402,0.0001089711,0.00006674377,0.0007862074,0.9609795,0.0003880022,0.0001067242,0.008823363],"study_design_scores_gemma":[0.0000144598,0.0007327952,0.3146568,0.00002338245,0.000107848,0.002217927,0.0001916292,0.009166714,0.6632315,0.001278544,0.008353761,0.00002461602],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9802318,0.000992352,0.01487084,0.00008519186,0.00001460462,0.00002701899,0.002145862,0.0001825384,0.001449842],"genre_scores_gemma":[0.9934646,0.0002786524,0.0036048,0.00004565464,0.000004491125,0.00002444678,0.001869139,0.00003999935,0.0006680324],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001767049,"threshold_uncertainty_score":0.00591135,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01364918121091318,"score_gpt":0.2867721181321569,"score_spread":0.2731229369212437,"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."}}