{"id":"W4377142511","doi":"10.1101/2023.05.19.541456","title":"Cancer cells co-evolve with retrotransposons to mitigate viral mimicry","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; University Health Network","funders":"","keywords":"Biology; Retrotransposon; Innate immune system; APOBEC; Genome; Pancreatic cancer; Tumor microenvironment; Transcriptome; Alu element; Immune system; Genetics; Cancer; Gene; Cancer research; Human genome; Transposable element; 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":[0.0001307873,0.0002323069,0.0003171772,0.0003222481,0.0001714061,0.0005244856,0.0001629874,0.0002690261,0.0009473333],"category_scores_gemma":[0.0001797176,0.0000895123,0.0002847106,0.0003285721,0.0001629706,0.0001960116,0.0003355411,0.0005195326,0.0004780149],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001863979,"about_ca_system_score_gemma":0.0001231556,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002164902,"about_ca_topic_score_gemma":0.0004131178,"domain_scores_codex":[0.9998553,0.00001554488,0.0000102779,0.00005025736,0.0000402044,0.00002849429],"domain_scores_gemma":[0.9998502,0.00001861545,0.00005719358,0.00002470096,0.00001826154,0.00003101038],"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":[0.00006357754,0.00002524398,0.003801124,0.00003652835,0.00001421234,0.00006928545,0.00002745149,0.0001177044,0.9933084,0.00005761506,0.00005874217,0.002420043],"study_design_scores_gemma":[0.00001647871,0.0009101988,0.09654586,0.00002376595,0.00008207955,0.001308469,0.000332138,0.006357318,0.8856993,0.0002955043,0.00841019,0.00001878684],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.994615,0.001008121,0.002523449,0.00005811355,0.0000232641,0.0000285997,0.0007082192,0.0001195716,0.0009156571],"genre_scores_gemma":[0.9946198,0.0003384573,0.002324493,0.00007469239,0.000009462199,0.000029577,0.001226603,0.00002275647,0.001354075],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009473333,"threshold_uncertainty_score":0.003169119,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01014149067673008,"score_gpt":0.2581472676489067,"score_spread":0.2480057769721766,"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."}}