{"id":"W4397029897","doi":"10.1101/2024.05.15.594021","title":"Cell-of-origin epigenome underlies SS18::SSX-mediated transformation","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Cancer Research and Treatments","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Sunnybrook Hospital; University of British Columbia","funders":"","keywords":"Epigenome; Transformation (genetics); Biology; Cell biology; Genetics; Computational biology; DNA methylation; Gene; 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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0002468783,0.0004109359,0.0003611729,0.0002110951,0.00007194617,0.00009873608,0.0003577027,0.0004634545,0.00003408445],"category_scores_gemma":[0.00003709149,0.000412265,0.0002177801,0.0002423417,0.0001185742,0.000007562403,0.0003276788,0.0004184721,0.00010518],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001507983,"about_ca_system_score_gemma":0.0009323935,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001932145,"about_ca_topic_score_gemma":0.00002224889,"domain_scores_codex":[0.9980369,0.00007406082,0.0004217043,0.0006807359,0.0003271385,0.0004595125],"domain_scores_gemma":[0.9986076,0.0000162972,0.000171818,0.0007617567,0.0002294495,0.0002130542],"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":[0.00008530583,0.0001433705,0.001209663,0.001003899,0.0003577806,0.0000249141,0.00001710269,0.00004806361,0.9962397,0.0001673162,0.000697726,0.0000051626],"study_design_scores_gemma":[0.0007330822,0.0002232895,0.004789202,0.0001961732,0.0001280782,1.469716e-8,0.000006213556,0.00006875848,0.9713239,0.00001413473,0.02199201,0.0005251435],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9860529,0.01043981,0.000545377,0.0001401438,0.0005610035,0.0006941775,0.001372835,0.00008502627,0.0001087452],"genre_scores_gemma":[0.9964027,0.002520429,0.0004275897,0.00004065978,0.0002738261,0.0001944002,0.0000152245,0.00009478102,0.00003041841],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02491579,"threshold_uncertainty_score":0.9998329,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01391592281166674,"score_gpt":0.2498477901369632,"score_spread":0.2359318673252965,"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."}}