{"id":"W4313260498","doi":"10.3390/fermentation9010014","title":"A Toolkit for Effective and Successive Genome Engineering of Escherichia coli","year":2022,"lang":"en","type":"article","venue":"Fermentation","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Recombineering; CRISPR; Genome engineering; Transposable element; Biology; Genome editing; Plasmid; Transposon mutagenesis; Genome; Cas9; Genetics; Escherichia coli; Gene; Computational biology","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":[0.00005339536,0.00004584656,0.00005060806,0.00002054061,0.0000367044,0.000004125412,0.00003056607,0.00001482048,0.000007077988],"category_scores_gemma":[0.00001711272,0.00005392348,0.00002046996,0.0000351836,0.000006077941,0.000001502184,0.0000392747,0.00002095982,8.704731e-8],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001111942,"about_ca_system_score_gemma":0.000008002084,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003839787,"about_ca_topic_score_gemma":7.735454e-7,"domain_scores_codex":[0.9997255,0.000008401276,0.00006622295,0.00009761011,0.00003910422,0.00006314832],"domain_scores_gemma":[0.9998848,0.000009325758,0.00002620203,0.00004771778,0.0000166472,0.0000152381],"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":[0.00004662247,0.0000101094,0.0003660804,0.000035486,0.00002234827,1.454017e-7,0.0001721276,0.01157349,0.9870849,0.00004342259,0.00001861733,0.0006266151],"study_design_scores_gemma":[0.001177806,0.0007991501,0.0833754,0.000004725252,0.00003290846,0.000003464208,0.0004174598,0.004738322,0.9061185,0.00002968806,0.003138831,0.0001637109],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9506592,0.0002453526,0.04865315,0.00001277098,0.00006544444,0.0003087221,0.00003060151,0.000003890733,0.00002093167],"genre_scores_gemma":[0.9981583,0.00001032557,0.001357148,0.00002169232,0.00003595434,0.0002435507,0.0001163212,0.000008585396,0.00004806107],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08300932,"threshold_uncertainty_score":0.2198935,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.003693109218057356,"score_gpt":0.2665740619006481,"score_spread":0.2628809526825907,"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."}}