{"id":"W4401998861","doi":"10.1128/mbio.01798-24","title":"High-throughput transposon mutagenesis in the family Enterobacteriaceae reveals core essential genes and rapid turnover of essentiality","year":2024,"lang":"en","type":"article","venue":"mBio","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Biotechnology and Biological Sciences Research Council; Natural Sciences and Engineering Research Council of Canada; Directorate for Biological Sciences; Marsden Fund; Bayerisches Staatsministerium für Wissenschaft und Kunst; Australian Research Council; Wellcome Trust; King Abdullah University of Science and Technology; Royal Society Te Apārangi; Ministry of Business, Innovation and Employment; UK Research and Innovation","keywords":"Transposon mutagenesis; Transposable element; Mutagenesis; Enterobacteriaceae; Gene; Genetics; Sleeping Beauty transposon system; Biology; Computational biology; DNA Transposable Elements; Mutation; Genome; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003045039,0.0002740086,0.0002676308,0.0004915511,0.0001520107,0.0002608479,0.0001407194,0.0002275112,0.0003416066],"category_scores_gemma":[0.0006311827,0.0001107648,0.0003180305,0.0003902756,0.0001223954,0.000107649,0.0002065241,0.0003437403,0.0001688766],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000218583,"about_ca_system_score_gemma":0.000128574,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008841985,"about_ca_topic_score_gemma":0.001600455,"domain_scores_codex":[0.9998211,0.00003215067,0.000021091,0.00004913583,0.00004524037,0.00003118606],"domain_scores_gemma":[0.9994527,0.000269071,0.0001014374,0.00005483467,0.00006127584,0.00006083564],"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":[0.0001312423,0.00002968506,0.008785821,0.00002513706,0.00001555394,0.00002986649,0.00002621409,0.0003879156,0.9880614,0.00002597646,0.00002220401,0.002458981],"study_design_scores_gemma":[0.00001736623,0.0007480152,0.2375668,0.00002000741,0.0000720254,0.0007206447,0.0002000587,0.02258486,0.7370118,0.0001846518,0.000850078,0.00002367373],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9968689,0.00008598857,0.002463362,0.00001378101,0.000001821992,0.000009286163,0.0004068549,0.00004919347,0.0001007804],"genre_scores_gemma":[0.9926749,0.00008481077,0.005343722,0.00002769943,0.00000148317,0.0000117401,0.001594273,0.00003531705,0.0002259911],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008841985,"threshold_uncertainty_score":0.001758039,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01026688561735587,"score_gpt":0.2815235994174145,"score_spread":0.2712567138000586,"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."}}