{"id":"W4386724743","doi":"10.1101/2023.09.11.555771","title":"IMPALA: A Comprehensive Pipeline for Detecting and Elucidating Mechanisms of Allele Specific Expression in Cancer","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; Genome British Columbia; University of British Columbia","funders":"","keywords":"Biology; Computational biology; Genetics; Gene; Genome; Allele; Genomics","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":[0.002742436,0.003129342,0.002430625,0.004844844,0.001542937,0.003655827,0.003856827,0.001590469,0.03396199],"category_scores_gemma":[0.008428856,0.002419781,0.003405264,0.002668962,0.000576885,0.001827592,0.004181194,0.002799727,0.02503554],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001366859,"about_ca_system_score_gemma":0.00255906,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005018082,"about_ca_topic_score_gemma":0.008781641,"domain_scores_codex":[0.9981432,0.0002537717,0.0001528835,0.0006988245,0.0005486244,0.0002026456],"domain_scores_gemma":[0.9975453,0.001299346,0.0002931568,0.0003935837,0.0002951119,0.0001735105],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001778002,0.0001603092,0.01853437,0.007380459,0.001551141,0.001856263,0.0009213194,0.01193449,0.06572527,0.007313923,0.660601,0.2222434],"study_design_scores_gemma":[0.0008476017,0.000368474,0.04721669,0.001061167,0.001090265,0.003510569,0.000623938,0.1280552,0.1183541,0.0394068,0.6586818,0.0007833602],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"software","genre_gemma":"methods","genre_scores_codex":[0.008894489,0.002995807,0.2836592,0.000879913,0.000261294,0.0004609278,0.1901738,0.5061876,0.006486996],"genre_scores_gemma":[0.07012586,0.001885198,0.5373329,0.00209286,0.0001875353,0.002714308,0.3286434,0.04966155,0.007356424],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.03396199,"threshold_uncertainty_score":0.1136141,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01998169080172122,"score_gpt":0.2463290133266677,"score_spread":0.2263473225249465,"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."}}