{"id":"W2126438274","doi":"10.1186/s13059-015-0698-x","title":"Dynamics of gene silencing during X inactivation using allele-specific RNA-seq","year":2015,"lang":"en","type":"article","venue":"Genome biology","topic":"Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities","field":"Biochemistry, Genetics and Molecular Biology","cited_by":152,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"Seventh Framework Programme; Medical Research Council; European Parliament; European Commission; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Wellcome Trust","keywords":"Biology; RNA-Seq; Genetics; Gene silencing; Human genetics; Gene; Allele; Computational biology; Genomics; Gene expression; Transcriptome; Genome","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":[0.000136574,0.0001259801,0.0001825341,0.00005029454,0.00005351281,0.000007695196,0.0001626857,0.0001794103,0.00003584463],"category_scores_gemma":[0.00003929505,0.0001202479,0.00006775039,0.000068961,0.0001261742,0.000004622122,0.00009359504,0.00006346271,0.000006217067],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004656787,"about_ca_system_score_gemma":0.00006637201,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000296151,"about_ca_topic_score_gemma":0.00001215911,"domain_scores_codex":[0.9990802,0.00005572858,0.0003216401,0.0002589459,0.00007621378,0.000207269],"domain_scores_gemma":[0.9993772,0.000008890206,0.0001566508,0.00021078,0.00015736,0.0000891386],"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":[0.00007614731,0.00004260762,0.001449383,0.00001308604,0.00002724098,0.000001684448,0.00009826513,0.0002562992,0.9966953,0.0004021371,0.000009487144,0.000928373],"study_design_scores_gemma":[0.001502861,0.0009734303,0.0119126,0.00001114441,0.00002156712,0.0000689533,0.002115096,0.000480798,0.9778614,0.001492825,0.003117747,0.0004415615],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948822,0.0007113106,0.003054176,0.00007874746,0.0001489339,0.00008126842,0.00002653768,0.00001003236,0.001006823],"genre_scores_gemma":[0.9972261,0.0001740167,0.001719514,0.00005732424,0.0002739604,0.000004387468,0.0002375054,0.00001336156,0.000293798],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01883387,"threshold_uncertainty_score":0.4903567,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03183780534138717,"score_gpt":0.269578085400525,"score_spread":0.2377402800591379,"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."}}