{"id":"W3031040698","doi":"10.1186/s42523-020-00028-6","title":"Composition and co-occurrence patterns of the microbiota of different niches of the bovine mammary gland: potential associations with mastitis susceptibility, udder inflammation, and teat-end hyperkeratosis","year":2020,"lang":"en","type":"article","venue":"Animal Microbiome","topic":"Milk Quality and Mastitis in Dairy Cows","field":"Agricultural and Biological Sciences","cited_by":105,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary; McMaster University; University of Manitoba","funders":"Dairy Farmers of Manitoba","keywords":"Udder; Mastitis; Biology; Ecological niche; Dysbiosis; Microbiome; Mammary gland; Microbiology; Colonization; Zoology; Ecology; 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":[0.00008528593,0.000104995,0.0001941721,0.000007607,0.0001227839,0.000023684,0.0001986769,0.00005852343,0.00005281166],"category_scores_gemma":[0.0000201576,0.00003798492,0.00005856697,0.000146239,0.0001951393,0.00007812202,0.0001970909,0.00008015623,2.228998e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007692406,"about_ca_system_score_gemma":0.00001099374,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002854344,"about_ca_topic_score_gemma":0.0006811189,"domain_scores_codex":[0.9992182,0.0001263523,0.0002685297,0.0001778536,0.0001083085,0.0001007429],"domain_scores_gemma":[0.9995182,0.00007244787,0.0002286982,0.00006717011,0.00008051546,0.00003300172],"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":[0.00004245453,0.00004747391,0.1387123,0.00006728098,0.00002312285,1.808925e-7,0.0002097418,7.109964e-7,0.8601279,0.0001061625,0.000173086,0.0004896169],"study_design_scores_gemma":[0.0002352755,0.0002983407,0.8039687,0.00007392096,0.00004073532,0.00000905198,0.0001485227,0.00001526641,0.1949925,0.00003063008,0.0001047096,0.0000824245],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9924729,0.00005787426,0.000015612,0.003950024,0.00002672633,0.0002141237,0.003242159,0.000006946281,0.00001365573],"genre_scores_gemma":[0.9996282,0.00004850947,0.0000377492,0.00009339757,0.0000293179,0.00000211107,0.0001516345,7.543368e-7,0.000008319288],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6652564,"threshold_uncertainty_score":0.154898,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01421175075922397,"score_gpt":0.2053143900442258,"score_spread":0.1911026392850018,"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."}}