{"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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001954031,0.0001266383,0.0001422572,0.00003295095,0.00002208603,0.00003129253,0.0001235464,0.00009809605,0.00001904578],"category_scores_gemma":[0.000006756916,0.00009893761,0.00007279439,0.00008957212,0.00006169412,0.00000375812,0.00003691893,0.00005794109,0.000001300861],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000004437374,"about_ca_system_score_gemma":0.00001680617,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001080522,"about_ca_topic_score_gemma":0.00006579547,"domain_scores_codex":[0.9992467,0.00004241202,0.0002070284,0.0002625749,0.00009177037,0.0001495154],"domain_scores_gemma":[0.9996933,0.00001464759,0.00002273547,0.0002278658,0.00001703012,0.00002441111],"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":[0.00003244001,0.00002775944,0.001723269,0.0001596661,0.00004340852,0.000008295407,0.0002589601,0.00004954345,0.9945941,0.00008591371,0.0004205457,0.002596096],"study_design_scores_gemma":[0.000477553,0.0001447524,0.1037407,0.00007637808,0.00007271991,0.00002303656,0.0001600002,0.00007055364,0.8844734,0.00009608889,0.01045011,0.0002147379],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9862127,0.009607801,0.003426231,0.0001069767,0.0003870064,0.0001416227,0.00006470957,0.000009497001,0.00004343104],"genre_scores_gemma":[0.9982181,0.001118803,0.0002451266,0.00005520435,0.0001993073,0.00001074952,0.00007882543,0.00001530641,0.00005862266],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1101207,"threshold_uncertainty_score":0.4034559,"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."}}