{"id":"W4366262960","doi":"10.1016/j.nbt.2023.04.005","title":"ReViTA: A novel in vitro transcription system to study gene regulation","year":2023,"lang":"en","type":"article","venue":"New Biotechnology","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Agencia Estatal de Investigación; Generalitat de Catalunya; Agència de Gestió d'Ajuts Universitaris i de Recerca; Ministerio de Asuntos Económicos y Transformación Digital, Gobierno de España; European Regional Development Fund; Federación Española de Enfermedades Raras; European Social Fund; Centres de Recerca de Catalunya","keywords":"Repressor lexA; E-box; General transcription factor; Transcription (linguistics); Promoter; Biology; RNA polymerase II; Repressor; Gene; TAF2; Response element; Molecular biology; Gene expression; Transcription factor II D; Transcription factor; Genetics","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":[0.0002588002,0.0002029593,0.0002619892,0.0004662345,0.00005687813,0.00001710711,0.0003483091,0.0008649529,0.000005306677],"category_scores_gemma":[0.00005405975,0.0002076652,0.00005997508,0.0009932828,0.00004788683,0.00000279823,0.0002015644,0.0001715014,0.00008104482],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004619631,"about_ca_system_score_gemma":0.00004956327,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009663965,"about_ca_topic_score_gemma":0.0001528142,"domain_scores_codex":[0.9984444,0.00004088344,0.0003560353,0.0006472853,0.0001080768,0.0004033195],"domain_scores_gemma":[0.9991899,0.000004232338,0.00006980979,0.0006271611,0.00003603992,0.00007287473],"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":[0.0001804484,0.00009523777,0.0001113817,0.0000102458,0.00002539507,0.000008826205,0.00004328201,0.00003529671,0.9790858,0.0002265672,0.0003069048,0.01987059],"study_design_scores_gemma":[0.001185893,0.0007415372,0.006296891,0.00001147281,0.00001500949,0.00003381813,0.0002516505,0.00009596503,0.9771371,0.00004105099,0.01396948,0.000220147],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9915105,0.0001177713,0.003614517,0.003249718,0.000393691,0.0007876677,0.00002250488,0.0002617,0.00004198514],"genre_scores_gemma":[0.996382,0.00007692935,0.002796474,0.0001085876,0.0001875861,0.00006673573,0.0001138257,0.00003282913,0.0002350405],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01965045,"threshold_uncertainty_score":0.846834,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01461537775756873,"score_gpt":0.2413534434775688,"score_spread":0.2267380657200001,"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."}}