{"id":"W2154568091","doi":"10.1186/s13068-014-0163-1","title":"Expansion of the genetic toolkit for metabolic engineering of Clostridium pasteurianum: chromosomal gene disruption of the endogenous CpaAI restriction enzyme","year":2014,"lang":"en","type":"article","venue":"Biotechnology for Biofuels","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":29,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University; University of Waterloo","funders":"Oak Ridge National Laboratory; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs","keywords":"Biology; Shuttle vector; Restriction enzyme; Genetics; Plasmid; Gene; Clostridium acetobutylicum; Mutant; Genome engineering; Intron; Clostridium; Genome; Computational biology; Genome editing; Biochemistry; Recombinant DNA; Vector (molecular biology); Bacteria","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":[0.000195955,0.0001586538,0.0002547753,0.00008302139,0.00006447835,0.000003031752,0.0003284457,0.0004085927,8.518552e-7],"category_scores_gemma":[0.0003228914,0.0001092979,0.0002368388,0.0002459653,0.000133878,0.000003616192,0.0001044461,0.00008377686,1.758616e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008484007,"about_ca_system_score_gemma":0.00004021,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001975482,"about_ca_topic_score_gemma":0.000002440419,"domain_scores_codex":[0.9990041,0.00003277147,0.0003976845,0.0002741601,0.0000865656,0.0002046884],"domain_scores_gemma":[0.9989485,0.00001201508,0.0003035601,0.0006090328,0.0001084342,0.00001852217],"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":[0.00005261669,0.00003884623,0.0001180656,0.0001340452,0.00005096178,1.728654e-8,0.00001330994,0.0004711559,0.994974,0.0004024038,0.00002229063,0.003722259],"study_design_scores_gemma":[0.0004722255,0.0003124707,0.001226213,0.00002593288,0.00009078897,0.00002675186,0.000009718,0.0001852586,0.9904503,0.00009320084,0.006999101,0.0001080259],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9758984,0.001544345,0.02065673,0.0001968172,0.0008304918,0.0006896587,0.0001612803,0.00001984229,0.000002396132],"genre_scores_gemma":[0.9957526,0.0003473592,0.003478059,0.00000860099,0.0002811327,0.00005095234,0.00002938906,0.00002362644,0.00002822481],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01985421,"threshold_uncertainty_score":0.445704,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008683405203917974,"score_gpt":0.1964297964047558,"score_spread":0.1877463912008378,"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."}}