{"id":"W2050171234","doi":"10.1128/jb.00155-11","title":"Characterization of DNA Binding Sites of the ComE Response Regulator from Streptococcus mutans","year":2011,"lang":"en","type":"article","venue":"Journal of Bacteriology","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":49,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute of Dental and Craniofacial Research; National Institutes of Health","keywords":"Biology; Footprinting; Direct repeat; Binding site; DNA footprinting; DNA; Streptococcus gordonii; Streptococcus mutans; Deoxyribonuclease I; Genetics; Genome; Molecular biology; DNA-binding protein; Gene; Transcription factor; Bacteria; Streptococcus; Base sequence","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":[0.0003181148,0.000123071,0.0003298418,0.00009130243,0.0000287693,0.000004181038,0.0003919268,0.0003699684,0.00007502315],"category_scores_gemma":[0.000172786,0.00008574961,0.0001466805,0.0001188255,0.0002534803,0.00000551531,0.0001544764,0.0001321368,0.000001039529],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001063833,"about_ca_system_score_gemma":0.0001181708,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009358007,"about_ca_topic_score_gemma":0.000009652465,"domain_scores_codex":[0.9987818,0.0002304369,0.0006184768,0.0001427343,0.00008425119,0.0001422902],"domain_scores_gemma":[0.9982919,0.00002388126,0.001045334,0.0003390876,0.0002593179,0.00004049994],"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":[0.001231167,0.00006528763,0.02676211,0.000007020778,0.0001039344,0.000002088931,0.0001062157,3.240866e-7,0.9713161,0.00002197181,0.00001356321,0.0003702239],"study_design_scores_gemma":[0.000307329,0.000713623,0.3186646,0.00002343418,0.00002772668,0.00002356408,0.00002866389,0.000001063837,0.6787248,0.00004141666,0.001386155,0.00005763199],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990383,0.00004961374,0.00004253302,0.0001271124,0.0004853014,0.0001035916,0.000129155,0.000002227316,0.0000221144],"genre_scores_gemma":[0.9992506,0.00009629473,0.0003862004,0.00003938528,0.0001474269,0.000001441661,0.00003229762,0.00001153905,0.00003484525],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2925912,"threshold_uncertainty_score":0.3496768,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0140344890165883,"score_gpt":0.2200637843160947,"score_spread":0.2060292952995064,"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."}}