{"id":"W2003447887","doi":"10.1139/g09-001","title":"Genome-wide analysis of rice (<i>Oryza sativa</i> L. subsp. <i>japonica</i>) TATA box and Y Patch promoter elements","year":2009,"lang":"en","type":"article","venue":"Genome","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":50,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Agentúra na Podporu Výskumu a Vývoja","keywords":"TATA box; Oryza sativa; Biology; Promoter; Genome; Genetics; Oryza; CAAT box; Japonica; Gene; Computational biology; Botany; Gene expression","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":true,"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":[0.0002426195,0.0002193693,0.0003454091,0.0001154569,0.00007496622,0.0000316486,0.0002919393,0.0001295766,0.00004122403],"category_scores_gemma":[0.00002111915,0.0002168304,0.0001557891,0.0003085488,0.00006292762,0.000005071114,0.0001530968,0.00008210744,0.000006268401],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002140994,"about_ca_system_score_gemma":0.0000500231,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002493038,"about_ca_topic_score_gemma":0.00004226648,"domain_scores_codex":[0.9985438,0.00004816212,0.0004407635,0.0004757675,0.0001548895,0.0003366037],"domain_scores_gemma":[0.9989759,0.00001125055,0.0002246636,0.0005808237,0.00008861208,0.0001187604],"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":[0.00003572093,0.0001053524,0.008899071,0.00002608974,0.0005553789,0.000003710601,0.0001827984,0.000108258,0.9895903,0.00002016963,0.00004097764,0.0004321061],"study_design_scores_gemma":[0.0009193136,0.0006301056,0.9623224,0.000006823922,0.0007037469,0.000008326974,0.0001224473,0.0003976004,0.02043592,0.0002916588,0.01361482,0.0005468792],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9960281,0.001371364,0.0009842877,0.0001676114,0.00002699177,0.0002224026,0.0001671568,0.0000093768,0.00102275],"genre_scores_gemma":[0.9948386,0.0005318754,0.003018992,0.0005029184,0.00005577077,0.000008500481,0.0006668594,0.00002036068,0.0003561385],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9691545,"threshold_uncertainty_score":0.8842088,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005459124490214019,"score_gpt":0.2178021724101185,"score_spread":0.2123430479199044,"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."}}