{"id":"W2107055282","doi":"10.1128/jb.01117-10","title":"Genome Annotation and Intraviral Interactome for the <i>Streptococcus pneumoniae</i> Virulent Phage Dp-1","year":2010,"lang":"en","type":"article","venue":"Journal of Bacteriology","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":52,"is_retracted":false,"has_abstract":true,"ca_institutions":"Centre hospitalier universitaire de Québec; Université Laval","funders":"National Institute of General Medical Sciences; Canadian Institutes of Health Research","keywords":"Biology; Interactome; Siphoviridae; Virulence; Genome; Genetics; Streptococcus pneumoniae; Phage display; Hypothetical protein; Open reading frame; Computational biology; Bacteriophage; Microbiology; Gene; Peptide sequence; Bacteria; 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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0002551812,0.0001100925,0.0001761039,0.00003606621,0.000125212,0.00005752129,0.000208632,0.00007582562,0.000934413],"category_scores_gemma":[0.00004383807,0.00007170731,0.00009647937,0.00004793204,0.0001940535,0.0003283333,0.00008898181,0.0003719791,0.00003361026],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003907383,"about_ca_system_score_gemma":0.00001153065,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002351234,"about_ca_topic_score_gemma":0.0001317851,"domain_scores_codex":[0.999241,0.00003670609,0.0003620412,0.0001298608,0.00005292678,0.0001774821],"domain_scores_gemma":[0.9992598,0.0001690901,0.000342279,0.0001266904,0.00002936022,0.00007281073],"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":[0.00005891148,0.00003731169,0.001518984,0.000003214484,0.00002473414,0.000004766603,0.0003269136,0.00001076957,0.9865103,0.00001324301,0.0001505802,0.01134022],"study_design_scores_gemma":[0.0005652432,0.0004947713,0.7965583,0.000009450087,0.00005526859,0.0006910649,0.0001212366,0.00007947336,0.01026291,0.0001276508,0.190908,0.0001265782],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9966654,0.00002943282,0.0005624412,0.001178695,0.001214256,0.0001957218,0.00002804248,0.000005341052,0.000120669],"genre_scores_gemma":[0.9985762,0.00006574982,0.0005078262,0.0003754878,0.0002916747,0.00001151628,0.000004502435,0.00001094546,0.000156057],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9762474,"threshold_uncertainty_score":0.9999788,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007350457349741865,"score_gpt":0.2483409287119457,"score_spread":0.2409904713622038,"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."}}