{"id":"W2949293075","doi":"10.1038/s41467-018-07451-z","title":"Heart enhancers with deeply conserved regulatory activity are established early in zebrafish development","year":2018,"lang":"en","type":"article","venue":"Nature Communications","topic":"Congenital heart defects research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":57,"is_retracted":false,"has_abstract":true,"ca_institutions":"SickKids Foundation; The Wilson Centre; Hospital for Sick Children; University of Toronto","funders":"National Heart, Lung, and Blood Institute; Hospital for Sick Children","keywords":"Zebrafish; Chromatin; Biology; Enhancer; Genetics; Gene; ChIA-PET; Conserved sequence; Regulation of gene expression; Regulatory sequence; Computational biology; Gene expression; Chromatin remodeling; Peptide sequence","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":[0.0002752666,0.0001302654,0.0001381952,0.0000939703,0.0002293649,0.00004574961,0.0006119768,0.0002751195,0.00001686147],"category_scores_gemma":[0.0001738329,0.0001251737,0.00003554083,0.0003436611,0.0003550948,0.00001416949,0.0004404965,0.0005743286,0.00002340119],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007338022,"about_ca_system_score_gemma":0.000389356,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006836787,"about_ca_topic_score_gemma":0.02263371,"domain_scores_codex":[0.9989201,0.0001943024,0.000139414,0.0002914693,0.0001903927,0.0002642767],"domain_scores_gemma":[0.9978656,0.00006493027,0.00005408493,0.001597979,0.0003246008,0.00009280278],"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":[0.0006735357,0.0005673507,0.2752684,0.00004415464,0.000164971,0.000005512352,0.0006418107,0.000002894704,0.7080777,0.0001520252,0.008454929,0.005946632],"study_design_scores_gemma":[0.000484306,0.0001665892,0.703284,0.00004234728,0.000005437541,0.000008514968,0.00006616038,0.00002806524,0.2133731,0.000008184283,0.08233654,0.0001967504],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9954411,0.001156868,0.00003028394,0.0009782424,0.00004201306,0.0003277576,0.0000078027,0.00002210367,0.001993772],"genre_scores_gemma":[0.9956236,0.00002651175,0.003473461,0.0003279043,0.00004514394,0.00008509214,0.00004828513,0.00002265079,0.0003473262],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4947047,"threshold_uncertainty_score":0.9952007,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01719850405274598,"score_gpt":0.3040311857026104,"score_spread":0.2868326816498644,"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."}}