{"id":"W3030304545","doi":"10.1186/s12864-020-6765-z","title":"Comparative genomic analysis of 142 bacteriophages infecting Salmonella enterica subsp. enterica","year":2020,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":29,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; Université Laval; McGill University; Canadian Food Inspection Agency","funders":"Ontario Ministry of Agriculture, Food and Rural Affairs; Canadian Food Inspection Agency; University of Ottawa; Genome Canada; James Madison University","keywords":"Prophage; Genome; Biology; Salmonella enterica; Comparative genomics; Genetics; Bacterial genome size; Genomics; Salmonella; GC-content; ORFS; Genome size; Computational biology; Gene; Bacteriophage; Open reading frame; Escherichia coli; Bacteria; Peptide sequence","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":[0.0002331474,0.0004121299,0.0003790101,0.001770034,0.000290326,0.0004670326,0.000216328,0.0003536651,0.001022173],"category_scores_gemma":[0.0006464146,0.0001970101,0.0006376776,0.0014544,0.0002003685,0.0001768099,0.0003696802,0.0003002729,0.0004165058],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002690124,"about_ca_system_score_gemma":0.0002958606,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001200019,"about_ca_topic_score_gemma":0.001043967,"domain_scores_codex":[0.999743,0.00003315069,0.00002651633,0.00007804769,0.00007243871,0.00004681028],"domain_scores_gemma":[0.9994041,0.0001768892,0.0001398592,0.00003333299,0.0001347525,0.0001111389],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0006986269,0.00008693164,0.01128935,0.0003041542,0.0000666242,0.000243122,0.00031583,0.0001638264,0.981976,0.00005521886,0.00004335588,0.00475691],"study_design_scores_gemma":[0.0000431312,0.001863104,0.8244169,0.00009212799,0.0003517114,0.00299443,0.0007388286,0.00131688,0.1630773,0.0001266979,0.004947534,0.00003140206],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9961552,0.0005161726,0.0008144924,0.00001417523,0.0000061649,0.00003502269,0.001867065,0.00001923345,0.0005725576],"genre_scores_gemma":[0.9782701,0.0005672469,0.006216708,0.00004978439,0.00001310475,0.00008359856,0.01413946,0.0000269962,0.0006331464],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001770034,"threshold_uncertainty_score":0.003419459,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03422112675555648,"score_gpt":0.2610268489552487,"score_spread":0.2268057221996922,"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."}}