{"id":"W3037401647","doi":"10.1101/gr.258871.119","title":"Dynamic transcriptional and chromatin accessibility landscape of medaka embryogenesis","year":2020,"lang":"en","type":"article","venue":"Genome Research","topic":"MicroRNA in disease regulation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":37,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Huazhong University of Science and Technology; Chinese Academy of Sciences; National Institute for Basic Biology; Division of Ocean Sciences; National Institutes of Natural Sciences; Institute of Genetics; National Natural Science Foundation of China","keywords":"Biology; Oryzias; Computational biology; Model organism; Genome; Transcriptome; Gene; Genetics; Chromatin; Gene expression","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003785132,0.00006962006,0.0001012753,0.00004590039,0.00005733668,0.00001581934,0.0001650737,0.00007778298,0.0001510843],"category_scores_gemma":[0.00009370546,0.00006740606,0.00004452627,0.0001641945,0.0001848791,0.000003820327,0.0001145422,0.00006728637,0.000007848473],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001178257,"about_ca_system_score_gemma":0.0001143091,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00000707413,"about_ca_topic_score_gemma":0.000009073738,"domain_scores_codex":[0.9989802,0.0001349862,0.000161936,0.0002952298,0.0002490527,0.0001785757],"domain_scores_gemma":[0.9994932,0.00001530559,0.0000304801,0.0001917554,0.0001421896,0.000127002],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001043547,0.00002723599,0.00280215,0.0001501589,0.00002763598,8.746305e-7,0.00007237422,0.00002775152,0.9958355,0.00002716357,0.00006607165,0.0008587239],"study_design_scores_gemma":[0.0008769074,0.0003357212,0.7511225,0.00001407537,0.00001765923,0.000006450168,0.0002756184,0.002118241,0.242342,0.0002163572,0.002475262,0.0001992357],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.994522,0.003790718,0.0005048356,0.0006570859,0.000009456584,0.0001945218,0.00007256484,0.000005577469,0.0002432805],"genre_scores_gemma":[0.9989334,0.0002017493,0.0005224503,0.0000259089,0.00005082098,0.00001461313,0.0001577643,0.00001161724,0.00008165123],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7534935,"threshold_uncertainty_score":0.2748739,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04092174051787786,"score_gpt":0.3347286209911354,"score_spread":0.2938068804732575,"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."}}