{"id":"W1990626904","doi":"10.1371/journal.pgen.1002600","title":"Critical Evaluation of Imprinted Gene Expression by RNA–Seq: A New Perspective","year":2012,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genetic Syndromes and Imprinting","field":"Biochemistry, Genetics and Molecular Biology","cited_by":230,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Canadian Institutes of Health Research","keywords":"Biology; Genomic imprinting; Genetics; Allele; Gene; Computational biology; False positive paradox; Concordance; RNA-Seq; Transcriptome; Pyrosequencing; Gene expression; DNA methylation; Statistics","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000295096,0.000165513,0.0001613285,0.00003652688,0.00004939645,0.0000147785,0.0001734102,0.0001638342,0.0001351377],"category_scores_gemma":[0.0005476458,0.0001634708,0.00008644717,0.00007710802,0.00006817909,0.000004972467,0.000174057,0.00007903227,0.00001464307],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000341393,"about_ca_system_score_gemma":0.000125856,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001346755,"about_ca_topic_score_gemma":0.000001447163,"domain_scores_codex":[0.9985587,0.0001147867,0.0002657768,0.0002897349,0.0004173475,0.0003536643],"domain_scores_gemma":[0.9987929,0.00001865456,0.0000938146,0.0003968339,0.0004916865,0.0002061195],"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":[0.000007806414,0.0002010297,0.002600786,0.00001238331,0.00004397544,5.842366e-8,0.000206703,0.00003030885,0.9945709,0.00003051503,0.0009265471,0.001369029],"study_design_scores_gemma":[0.0005071855,0.0002200993,0.00168235,0.00001981539,0.000121191,0.0000109674,0.0003015356,0.00118249,0.9950321,0.0001936631,0.0005420001,0.0001866314],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9856672,0.008451735,0.004112524,0.00009085717,0.0001942289,0.000240647,0.00001639159,0.000009126447,0.001217316],"genre_scores_gemma":[0.9896486,0.0001485959,0.00964509,0.00004923563,0.0002875841,0.00001648002,0.00003524381,0.00003178797,0.0001373343],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008303138,"threshold_uncertainty_score":0.6666145,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03333032953320142,"score_gpt":0.3172731554300056,"score_spread":0.2839428258968042,"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."}}