{"id":"W4310045830","doi":"10.1186/s42523-022-00211-x","title":"A longitudinal census of the bacterial community in raw milk correlated with Staphylococcus aureus clinical mastitis infections in dairy cattle","year":2022,"lang":"en","type":"article","venue":"Animal Microbiome","topic":"Milk Quality and Mastitis in Dairy Cows","field":"Agricultural and Biological Sciences","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; McGill University; Cegep de Saint Hyacinthe","funders":"Natural Sciences and Engineering Research Council of Canada; Dairy Farmers of Canada","keywords":"Mastitis; Staphylococcus aureus; Udder; Microbiome; Biology; Microbiology; Dairy cattle; Staphylococcal infections; Staphylococcus epidermidis; Staphylococcus; Somatic cell count; Veterinary medicine; Lactation; Bacteria; Ice calving; Medicine; Animal science; Pregnancy; Bioinformatics","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":[0.0005371609,0.0001388989,0.0002247689,0.0007114894,0.0003175751,0.0005651641,0.0002278103,0.0003780761,0.0007006934],"category_scores_gemma":[0.001121892,0.000163362,0.000191001,0.0006650165,0.000251395,0.0002778585,0.0003443977,0.0002826799,0.0001425445],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004615874,"about_ca_system_score_gemma":0.0002010241,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004771711,"about_ca_topic_score_gemma":0.006962279,"domain_scores_codex":[0.9995841,0.00008314572,0.0000227481,0.0001230297,0.00008363098,0.0001032416],"domain_scores_gemma":[0.9990422,0.0001474662,0.0004259404,0.00005271912,0.0001811148,0.0001504966],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001306357,0.00001751948,0.9959066,0.000005692496,0.00002087468,0.00001818469,0.00005962076,0.0000342728,0.002900072,0.000004660094,0.00003052018,0.0008712937],"study_design_scores_gemma":[7.22923e-7,0.00004759465,0.9995844,0.000001586426,0.000005397541,0.00003562489,0.00009255687,0.00009206177,0.0000959415,0.000004977282,0.00003818554,9.255828e-7],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9996095,0.00006924567,0.0000555792,0.000007066628,8.901458e-7,0.000001766003,0.0001901663,0.000001517498,0.00006429365],"genre_scores_gemma":[0.9993439,0.00004737003,0.0001128037,0.00001166613,0.000002125271,0.000006341359,0.0003852968,8.520915e-7,0.00008956897],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004771711,"threshold_uncertainty_score":0.009487867,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04339110574913259,"score_gpt":0.267133586358333,"score_spread":0.2237424806092004,"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."}}