{"id":"W2061478525","doi":"10.1371/journal.pgen.0030159","title":"In Vivo Validation of a Computationally Predicted Conserved Ath5 Target Gene Set","year":2007,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":56,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; University of Tokyo; Deutsche Forschungsgemeinschaft; European Commission","keywords":"Biology; In silico; Genome; Chromatin immunoprecipitation; DNA binding site; Conserved sequence; Transcription factor; Genetics; Computational biology; Promoter; Binding site; Gene; Phylogenetic tree; Regulatory sequence; Gene expression; Peptide sequence","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005334281,0.000507506,0.0005219643,0.0003225048,0.00037022,0.000304896,0.0004752362,0.0003913971,0.002226023],"category_scores_gemma":[0.0006505427,0.0002125537,0.0004621417,0.0002659041,0.0002400894,0.0001127586,0.0003944859,0.0004949718,0.0006819366],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004270825,"about_ca_system_score_gemma":0.0004128007,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00167644,"about_ca_topic_score_gemma":0.002122814,"domain_scores_codex":[0.999657,0.0000748335,0.00001665364,0.00009784826,0.0001158401,0.00003773013],"domain_scores_gemma":[0.9996032,0.0002331075,0.00004065728,0.00005002705,0.00003663689,0.00003641],"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":[0.0003839266,0.0001339249,0.001701844,0.00008335476,0.0000344303,0.000065515,0.00001732703,0.006570785,0.9863203,0.0002884525,0.0000908398,0.004309255],"study_design_scores_gemma":[0.00003895704,0.0005690531,0.006338316,0.000005814718,0.00004633672,0.0001637914,0.00002687048,0.05032714,0.9409449,0.0002000843,0.001323452,0.00001535739],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9721041,0.0003381115,0.02511309,0.00006198061,0.00002559725,0.00003813274,0.001301607,0.0002107995,0.0008065145],"genre_scores_gemma":[0.9528074,0.0002695752,0.04000466,0.00007420187,0.000009308975,0.00008098935,0.005053637,0.0001501599,0.001549932],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002226023,"threshold_uncertainty_score":0.007446766,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01081786774687725,"score_gpt":0.233906606685314,"score_spread":0.2230887389384368,"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."}}