{"id":"W1995036572","doi":"10.1021/bi049404k","title":"Metal-Selective DNA-Binding Response of <i>Escherichia coli</i> NikR","year":2004,"lang":"en","type":"article","venue":"Biochemistry","topic":"DNA and Nucleic Acid Chemistry","field":"Biochemistry, Genetics and Molecular Biology","cited_by":81,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Divalent; Escherichia coli; Chemistry; Operon; DNA; Nickel; Repressor; Metal; Binding site; Biochemistry; Transcription factor; Gene","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0002485091,0.0002703347,0.0002537202,0.00002630071,0.00008096048,0.00001514417,0.0003608448,0.0003557191,0.00003160891],"category_scores_gemma":[0.0002711035,0.0002855687,0.0001989538,0.0001979831,0.0002151039,0.000004885503,0.0001510783,0.0001545799,0.00001596115],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006540833,"about_ca_system_score_gemma":0.0003289078,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007663973,"about_ca_topic_score_gemma":7.973051e-7,"domain_scores_codex":[0.9985813,0.00003188012,0.000317759,0.000503592,0.0002155126,0.0003499233],"domain_scores_gemma":[0.9989555,0.00001866083,0.0001838702,0.000564036,0.0001264518,0.0001514312],"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":[0.0007311056,0.0001380957,0.0002655501,0.00006209155,0.0001128006,0.000008122021,0.00003857128,0.000008910339,0.9973055,0.00001060893,0.00125876,0.0000598443],"study_design_scores_gemma":[0.001022147,0.0001489893,0.0002828776,0.00003831103,0.00004134916,0.00002893755,0.0001506207,0.000001138559,0.9949684,0.00004891541,0.002951643,0.0003166433],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9946947,0.0004342785,0.0001133114,0.0001102152,0.00008898821,0.0001003841,0.00006456574,0.00003121198,0.004362417],"genre_scores_gemma":[0.9962485,0.00004746967,0.001103208,0.0001472731,0.0001976156,0.00002054284,0.000120414,0.00004264501,0.002072377],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002337111,"threshold_uncertainty_score":0.9999596,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00605261652655831,"score_gpt":0.2262944716237761,"score_spread":0.2202418550972178,"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."}}