{"id":"W4410823796","doi":"10.1128/mbio.00382-25","title":"CRISPR/dCas-mediated counter-silencing: reprogramming dCas proteins into antagonists of xenogeneic silencers","year":2025,"lang":"en","type":"article","venue":"mBio","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"Canadian Institutes of Health Research; Deutsche Forschungsgemeinschaft; Jürgen Manchot Stiftung","keywords":"Biology; Gene silencing; Nucleoid; Genetics; RNA interference; CRISPR; CRISPR interference; Promoter; Computational biology; RNA; Gene; Cas9; Cell biology; Gene expression; Escherichia coli","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0001892891,0.0001800693,0.0001943781,0.00008263544,0.00007265893,0.00002350366,0.0002280425,0.0001643166,0.00001678708],"category_scores_gemma":[0.0001297476,0.0001845392,0.000104492,0.0002147478,0.00009284031,0.000003061588,0.0001314334,0.00009669319,0.000006609541],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003179754,"about_ca_system_score_gemma":0.0001181746,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002130339,"about_ca_topic_score_gemma":0.0000922754,"domain_scores_codex":[0.9988549,0.00002624994,0.0003061063,0.0004040662,0.0001307166,0.0002779585],"domain_scores_gemma":[0.9992607,0.00001263978,0.00007413757,0.0004804603,0.0001052087,0.00006683238],"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":[0.0000419647,0.00005152107,0.002806491,0.0001614337,0.00006951264,0.000005321314,0.0001813087,0.0001481284,0.9895309,0.00003639672,0.0007613453,0.006205652],"study_design_scores_gemma":[0.0003787727,0.0001915874,0.001532377,0.00007930327,0.00002743711,0.000005720153,0.0002809567,0.0002197774,0.9729018,0.00004048128,0.02415507,0.0001866704],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9790401,0.003106318,0.01620174,0.0001352055,0.0003014098,0.000357891,0.00001595471,0.00003526577,0.0008060577],"genre_scores_gemma":[0.9968051,0.0001967661,0.002268661,0.0001056964,0.00008877717,0.00004728838,0.00007822841,0.00002019939,0.0003893346],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02339372,"threshold_uncertainty_score":0.752529,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.004913511512568206,"score_gpt":0.3058854869972209,"score_spread":0.3009719754846527,"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."}}