{"id":"W2790585426","doi":"10.1007/978-1-4939-7710-9_14","title":"A Protocol for Epigenetic Imprinting Analysis with RNA-Seq Data","year":2018,"lang":"en","type":"article","venue":"Methods in molecular biology","topic":"Genetic Syndromes and Imprinting","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":false,"ca_institutions":"McGill University; Saskatchewan Research Council (Canada); National Research Council Canada","funders":"","keywords":"Genomic imprinting; Epigenetics; Biology; Imprinting (psychology); Arabidopsis; Genetics; Gene; Computational biology; Transcriptome; DNA methylation; 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":[],"consensus_categories":[],"category_scores_codex":[0.001650317,0.0002582799,0.0003919136,0.0002068786,0.00008422984,0.0000290486,0.0007829217,0.000246537,0.00003677471],"category_scores_gemma":[0.000559056,0.0002159803,0.0001280965,0.0005327618,0.0002397614,0.000002876789,0.0006677042,0.0001079601,0.000002653656],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001219902,"about_ca_system_score_gemma":0.00009846793,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000631808,"about_ca_topic_score_gemma":0.0001132814,"domain_scores_codex":[0.9974071,0.0004990632,0.0004340529,0.001034292,0.00007430351,0.0005511343],"domain_scores_gemma":[0.9980673,0.0000580137,0.0001944956,0.001447131,0.0001518876,0.00008118201],"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":[0.00005541323,0.00004872564,0.01409715,0.00002902607,0.0003638534,0.000001653342,0.00002163678,0.0000693853,0.9446118,0.0001148985,0.00002005269,0.04056643],"study_design_scores_gemma":[0.002132932,0.00179747,0.006352852,0.00002448646,0.0002491202,0.00003126652,0.00006030919,0.005770297,0.9364708,0.001023127,0.04550386,0.0005834871],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02746575,0.00004249093,0.9523415,0.00006886257,0.00006057343,0.01945726,0.00001530031,0.00001325496,0.000535012],"genre_scores_gemma":[0.01860216,0.000002546125,0.9521511,0.0002318413,0.0001654514,0.02858889,0.0001193235,0.00004313184,0.00009550593],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.04548381,"threshold_uncertainty_score":0.8807421,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05947813442963711,"score_gpt":0.4539570101624232,"score_spread":0.3944788757327861,"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."}}