{"id":"W4390858353","doi":"10.1093/ismejo/wrae005","title":"<i>Escherichia coli</i> CRISPR arrays from early life fecal samples preferentially target prophages","year":2024,"lang":"en","type":"article","venue":"The ISME Journal","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval","funders":"Det Sundhedsvidenskabelige Fakultet, Københavns Universitet; Natural Sciences and Engineering Research Council of Canada; Compute Canada; Canadian Institutes of Health Research; Faculty of Health and Medical Sciences, University of Western Australia; Alliance de recherche numérique du Canada; Canada First Research Excellence Fund; Novo Nordisk Fonden; Fonds de recherche du Québec – Nature et technologies; Danish Agency for Science and Higher Education; Copenhagen Graduate School for Nanoscience and Nanotechnology; Novo Nordisk","keywords":"Biology; Prophage; Escherichia coli; CRISPR; Feces; Microbiology; Lysogenic cycle; Genetics; Bacteriophage; Gene","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":[0.0002209465,0.0001785731,0.0001420289,0.00002874562,0.0001479207,0.0002581189,0.0003120924,0.0001091136,0.0001606927],"category_scores_gemma":[0.00005139735,0.000121006,0.0001476571,0.00007053251,0.00005010854,0.000007032693,0.00008836068,0.000365515,0.00003159812],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001050412,"about_ca_system_score_gemma":0.0001465379,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002989359,"about_ca_topic_score_gemma":0.000009588566,"domain_scores_codex":[0.9990024,0.00007117884,0.0002356357,0.0002211275,0.0001971469,0.0002725369],"domain_scores_gemma":[0.9994977,0.00002542586,0.00004327835,0.0002342112,0.00004842977,0.0001509918],"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":[0.00004726827,0.00002551916,0.0002053988,0.00001868483,0.0002420781,0.000009764984,0.0003267056,0.001330687,0.980949,0.00004752985,0.01546676,0.001330575],"study_design_scores_gemma":[0.0005748108,0.0003976967,0.01587889,0.00009638091,0.0001777062,0.00006661534,0.0002067752,0.001033635,0.786764,0.00149048,0.1928481,0.0004649428],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8385343,0.009082405,0.1502212,0.0008148244,0.0008358828,0.0001103002,0.00004243759,0.00003157451,0.0003270633],"genre_scores_gemma":[0.9929468,0.0005964956,0.003255686,0.0002799694,0.002324099,0.000008477168,0.00002600481,0.0000403328,0.0005221348],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1941851,"threshold_uncertainty_score":0.4934481,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01205726318715176,"score_gpt":0.2726439083357189,"score_spread":0.2605866451485672,"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."}}