{"id":"W2766325520","doi":"10.3168/jds.2017-13226","title":"Short communication: Evaluation of MALDI-TOF mass spectrometry and a custom reference spectra expanded database for the identification of bovine-associated coagulase-negative staphylococci","year":2017,"lang":"en","type":"article","venue":"Journal of Dairy Science","topic":"Bacterial Identification and Susceptibility Testing","field":"Biochemistry, Genetics and Molecular Biology","cited_by":62,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Prince Edward Island","funders":"Agriculture and Agri-Food Canada; Atlantic Veterinary College; Canadian Dairy Commission; Dairy Farmers of Canada; University of Missouri","keywords":"Coagulase; rpoB; Mass spectrometry; Database; Mass spectrum; Identification (biology); Biology; Chemistry; Staphylococcus; Chromatography; Genetics; Gene; Bacteria; Staphylococcus aureus; 16S ribosomal RNA; Computer science","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":[0.00603249,0.001071676,0.000931711,0.002744368,0.0004729536,0.001265033,0.001791134,0.001273709,0.001644916],"category_scores_gemma":[0.008438091,0.0003376274,0.000506058,0.001556149,0.0003441013,0.00132811,0.001457969,0.0005725785,0.001289796],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007522323,"about_ca_system_score_gemma":0.0007034155,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001561305,"about_ca_topic_score_gemma":0.001877568,"domain_scores_codex":[0.9938288,0.001102004,0.0005744638,0.001264685,0.002995772,0.0002342887],"domain_scores_gemma":[0.9942185,0.001318654,0.0009852294,0.0007398363,0.002437664,0.0003000133],"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":[0.002357202,0.0009660145,0.02101508,0.0006146227,0.0002506627,0.000563367,0.00017974,0.002902559,0.849915,0.0002587551,0.00207026,0.1189067],"study_design_scores_gemma":[0.0002412853,0.003102223,0.07969037,0.00009714507,0.0003565658,0.005394337,0.0002990047,0.03389704,0.8631163,0.0003598962,0.01329588,0.0001500989],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9176533,0.004032158,0.06560564,0.0003646303,0.0001678232,0.0005780199,0.007021402,0.001595465,0.002981599],"genre_scores_gemma":[0.7970905,0.001724295,0.1681298,0.0003663325,0.0001007786,0.0003761709,0.0298264,0.0003550516,0.002030561],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00603249,"threshold_uncertainty_score":0.03190327,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07152110970885031,"score_gpt":0.3584381859927316,"score_spread":0.2869170762838813,"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."}}