{"id":"W2014323284","doi":"10.1038/ncomms4644","title":"Processed pseudogenes acquired somatically during cancer development","year":2014,"lang":"en","type":"article","venue":"Nature Communications","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":112,"is_retracted":false,"has_abstract":true,"ca_institutions":"SickKids Foundation; Hospital for Sick Children; BC Cancer Agency; University of Toronto","funders":"National Research Council Canada; Rosetrees Trust; University College London Hospitals NHS Foundation Trust; European Commission; Wellcome Trust; Academy of Medical Sciences; Kay Kendall Leukaemia Fund; National Institute for Health and Care Research; National Cancer Institute; National Institutes of Health; Cancer Research UK","keywords":"Pseudogene; Biology; Retrotransposon; Genetics; Germline; Gene; Germline mutation; Exon; Intron; Context (archaeology); Mutation; Somatic cell; Cancer; Genome; Transposable element","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002112586,0.0002116297,0.0001911805,0.0006852242,0.0002318382,0.0004088647,0.0001577288,0.0003122807,0.0009498712],"category_scores_gemma":[0.000752755,0.0001526465,0.0002219251,0.0005391244,0.0002871417,0.0001948083,0.0002279389,0.00021387,0.00024063],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000144915,"about_ca_system_score_gemma":0.0001578812,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002007054,"about_ca_topic_score_gemma":0.0004762241,"domain_scores_codex":[0.9996437,0.00005234528,0.00003303952,0.00007293544,0.0001531523,0.00004492946],"domain_scores_gemma":[0.9991735,0.0002565547,0.0003050617,0.00009891424,0.00008265162,0.000083345],"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":[0.0005105229,0.00003751453,0.09816121,0.00009170271,0.00006417175,0.002091048,0.0001164443,0.0002057469,0.8867339,0.0002590787,0.0000603585,0.01166817],"study_design_scores_gemma":[0.00002354352,0.000584934,0.3945746,0.00002244632,0.000134071,0.0242526,0.0001999678,0.001065046,0.5742069,0.000441174,0.004474952,0.00001971347],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9973954,0.0004005272,0.001573095,0.00001502392,0.000005384678,0.000008863494,0.0001844828,0.00003042005,0.000386856],"genre_scores_gemma":[0.9967931,0.0003295394,0.001713908,0.00002805621,0.000007677804,0.00000908785,0.00062935,0.00001261014,0.0004765739],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009498712,"threshold_uncertainty_score":0.003177583,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01159716898897905,"score_gpt":0.2817251476966157,"score_spread":0.2701279787076366,"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."}}