{"id":"W4411624692","doi":"10.1128/msystems.00587-25","title":"Multi-omics characterization of a lytic phage targeting <i>Listeria monocytogenes</i>","year":2025,"lang":"en","type":"article","venue":"mSystems","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; Agriculture and Agri-Food Canada","funders":"Bijzonder Onderzoeksfonds UGent; Agriculture and Agri-Food Canada; Natural Sciences and Engineering Research Council of Canada; HORIZON EUROPE Framework Programme; European Commission","keywords":"Lytic cycle; Biology; Listeria monocytogenes; Transcriptome; Listeria; Bacteriophage; Gene; DNA microarray; Transcription (linguistics); Phage display; Gene expression; Genetics; Microbiology; Bacteria; Virus; Escherichia coli; Antibody","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":[0.0001128209,0.00009825928,0.0001588973,0.00003476132,0.00007647661,0.00003429221,0.0001385786,0.00005493644,0.0002848594],"category_scores_gemma":[0.00001205602,0.00009580433,0.00005723565,0.0001809298,0.0000401926,0.0001391601,0.0001106426,0.00005228657,0.0001390265],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000108895,"about_ca_system_score_gemma":0.000008436788,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004413361,"about_ca_topic_score_gemma":0.00004182522,"domain_scores_codex":[0.9992595,0.00004027527,0.0003126343,0.0001874425,0.00005632118,0.0001437872],"domain_scores_gemma":[0.9996303,0.00001333584,0.0001430246,0.0001733113,0.00001025182,0.00002978976],"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":[0.00001007707,0.00005471596,0.002679095,0.00004686455,0.00001039353,0.000001093252,0.0001692034,0.00003087299,0.996243,0.000009511079,0.000239291,0.0005058827],"study_design_scores_gemma":[0.0008051964,0.00003923964,0.1132379,0.0001830493,0.00004731528,0.00001198744,0.0001897727,0.006997092,0.7902805,0.00000451815,0.087928,0.0002754043],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.991311,0.00002265881,0.005396683,0.00006668711,0.000768991,0.0002727273,0.0000466757,0.00003424952,0.002080331],"genre_scores_gemma":[0.9946356,0.00001214963,0.0005866658,0.0001426716,0.00003368104,0.00001890866,0.00004762437,0.00001031915,0.004512311],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2059625,"threshold_uncertainty_score":0.3906787,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01258029280520737,"score_gpt":0.2493155762627334,"score_spread":0.236735283457526,"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."}}