{"id":"W2136626927","doi":"10.1038/ismej.2008.24","title":"<i>Escherichia coli</i>transcription factor YncC (McbR) regulates colanic acid and biofilm formation by repressing expression of periplasmic protein YbiM (McbA)","year":2008,"lang":"en","type":"article","venue":"The ISME Journal","topic":"Bacterial biofilms and quorum sensing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":90,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; National Institute of Biomedical Imaging and Bioengineering; National Institutes of Health; Keio University","keywords":"Biology; Biofilm; Repressor; Periplasmic space; Overproduction; Transcription factor; Transcription (linguistics); Quorum sensing; Escherichia coli; Molecular biology; Microbiology; Gene; Biochemistry; Bacteria; Genetics","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001974603,0.0001506016,0.0001657033,0.00002877506,0.0003840723,0.0000579172,0.0001178684,0.0001527962,0.00001928089],"category_scores_gemma":[0.00002722911,0.0001058608,0.00007553522,0.00005613259,0.0001289312,0.00003597455,0.00004451843,0.0001816399,9.809512e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001485212,"about_ca_system_score_gemma":0.00004459618,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001581252,"about_ca_topic_score_gemma":0.000002782439,"domain_scores_codex":[0.9990221,0.0001321361,0.000326788,0.0001614755,0.0001538833,0.0002036042],"domain_scores_gemma":[0.999356,0.00000614215,0.0002998843,0.0001870561,0.00007781334,0.00007309949],"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":[0.0001838723,0.00002329525,0.0001084468,0.00001794392,0.00001493493,0.000001233023,0.0002959598,0.000004470015,0.9977116,0.00000187486,0.0009676178,0.0006687437],"study_design_scores_gemma":[0.0005346346,0.0002143577,0.001829138,0.00009591633,0.00001537434,0.0002691329,0.0001365191,0.00009816531,0.9931547,0.00001585078,0.00350143,0.0001347879],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.997806,0.0009598159,0.0004992411,0.0003201451,0.000135821,0.0001899532,0.00002298932,0.0000089671,0.00005710754],"genre_scores_gemma":[0.9979693,0.0005039411,0.001031942,0.0001099623,0.0001727168,0.000002843028,0.00002923483,0.00001793316,0.0001620764],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004556914,"threshold_uncertainty_score":0.431688,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01171145804580378,"score_gpt":0.2102778034960191,"score_spread":0.1985663454502153,"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."}}