{"id":"W2884690521","doi":"10.1186/s12866-018-1211-y","title":"Bacterial DNA patterns identified using paired-end Illumina sequencing of 16S rRNA genes from whole blood samples of septic patients in the emergency room and intensive care unit","year":2018,"lang":"en","type":"article","venue":"BMC Microbiology","topic":"Bacterial Identification and Susceptibility Testing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University; Foothills Medical Centre; University of Calgary","funders":"Alberta Innovates; Alberta Heritage Foundation for Medical Research; Fondation pour la Recherche Médicale","keywords":"Sepsis; Biology; Blood culture; DNA extraction; Intensive care unit; Whole blood; Microbiology; Streptococcus; Bacteria; Immunology; Polymerase chain reaction; Medicine; Gene; Internal medicine; Antibiotics; Genetics","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":[0.0001736111,0.0001451967,0.0002305014,0.0000555864,0.00006570391,0.00001283122,0.0002155341,0.0001615782,0.00008329636],"category_scores_gemma":[0.0003173691,0.0001248087,0.00006605956,0.00007626139,0.0001810581,0.000007509449,0.0001572477,0.00005424654,0.000001404346],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001166306,"about_ca_system_score_gemma":0.0000688935,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001377459,"about_ca_topic_score_gemma":0.005981439,"domain_scores_codex":[0.998643,0.0003039169,0.000480418,0.0003559126,0.00003736006,0.0001794135],"domain_scores_gemma":[0.9987677,0.00004055087,0.000275906,0.0003444305,0.0005465472,0.00002485898],"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":[0.00004069451,0.00002431166,0.2710273,0.00004601957,0.00002480162,3.448419e-7,0.001431616,7.126824e-7,0.7272407,0.000001800357,0.00001161983,0.0001500252],"study_design_scores_gemma":[0.0006474325,0.000201487,0.3467188,0.00005268559,0.00006395294,0.000008951305,0.005859005,0.000008793986,0.6461567,0.00001970257,0.0001159303,0.0001465873],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984671,0.000168272,0.0001209993,0.000008071252,0.0004282507,0.000214547,0.0005821704,0.000004248443,0.000006267654],"genre_scores_gemma":[0.9980255,0.00002079528,0.0004122671,0.00003386408,0.0001530205,0.000003987461,0.001328046,0.00001299711,0.000009478713],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08108399,"threshold_uncertainty_score":0.5089551,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04482425950427814,"score_gpt":0.2693336596996436,"score_spread":0.2245094001953655,"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."}}