{"id":"W2946179101","doi":"10.3389/fmicb.2019.01093","title":"Fecal Microbial Communities in a Large Representative Cohort of California Dairy Cows","year":2019,"lang":"en","type":"article","venue":"Frontiers in Microbiology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":101,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"University of California, Davis; California Dairy Research Foundation","keywords":"Feces; Biology; Operational taxonomic unit; Relative species abundance; Fecal coliform; Dairy cattle; Amplicon sequencing; Microbiome; Veterinary medicine; Animal science; Biotechnology; Abundance (ecology); Ecology; 16S ribosomal RNA; Water quality; Bacteria","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0004975449,0.0001955359,0.0004996038,0.000200298,0.00003397088,0.000005366839,0.0003299229,0.0003708429,0.00009584658],"category_scores_gemma":[0.0000260561,0.0002002131,0.00009318821,0.000149295,0.0002481274,0.000004318766,0.0002392329,0.000301869,0.00002766837],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006661102,"about_ca_system_score_gemma":0.0001410204,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004893043,"about_ca_topic_score_gemma":0.001541888,"domain_scores_codex":[0.9982288,0.0003954278,0.0004859765,0.0003558324,0.00002936972,0.0005046309],"domain_scores_gemma":[0.9992793,0.00002333038,0.000149274,0.0004521422,0.00005375164,0.00004226836],"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":[0.0002151986,0.00009765131,0.4820645,0.0000370679,0.00003177738,0.000002582772,0.0003510742,0.00001327686,0.502641,0.0000144307,0.01449605,0.00003539209],"study_design_scores_gemma":[0.01372273,0.001399242,0.3258649,0.00029459,0.0000534274,0.0002136187,0.01169062,0.0001515382,0.3421902,0.0001882645,0.3028553,0.001375613],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9962101,0.001069815,0.0004638811,0.00007749785,0.000646695,0.0005378621,0.0005795693,0.000006108699,0.0004084531],"genre_scores_gemma":[0.994701,0.0003699535,0.002311746,0.0004648965,0.00004278178,0.00001699122,0.001652149,0.00002317883,0.0004173627],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2883592,"threshold_uncertainty_score":0.8164452,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006638081150965632,"score_gpt":0.252500908514302,"score_spread":0.2458628273633363,"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."}}