{"id":"W2463529178","doi":"10.3389/fmicb.2016.00987","title":"Taxonomic Assessment of Rumen Microbiota Using Total RNA and Targeted Amplicon Sequencing Approaches","year":2016,"lang":"en","type":"article","venue":"Frontiers in Microbiology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":92,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Alberta Livestock and Meat Agency; Alberta Innovates; New Zealand Government","keywords":"Amplicon; Biology; Phylum; RNA; Metagenomics; Amplicon sequencing; Pyrosequencing; Ribosomal RNA; Microbiome; 16S ribosomal RNA; Genetics; Deep sequencing; DNA sequencing; Computational biology; DNA; Gene; Polymerase chain reaction; Genome","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":[0.001183797,0.0009641801,0.000659328,0.002093479,0.0005769226,0.001176468,0.0004433617,0.0006426522,0.0007514646],"category_scores_gemma":[0.001477248,0.0003118118,0.0009136666,0.001016306,0.0003056256,0.0005799996,0.0007249443,0.0005427183,0.0005365019],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003452038,"about_ca_system_score_gemma":0.0004980061,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001577834,"about_ca_topic_score_gemma":0.002983708,"domain_scores_codex":[0.9984555,0.0002910731,0.000124675,0.0005560117,0.0004495739,0.0001232488],"domain_scores_gemma":[0.9993036,0.0001506281,0.0001957366,0.00007202203,0.0002329787,0.00004500735],"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":[0.0002230109,0.00007306435,0.01631084,0.0005000429,0.0001609481,0.00008346232,0.0002541567,0.0008370301,0.9472615,0.0002212967,0.0001663379,0.03390828],"study_design_scores_gemma":[0.00004959498,0.001103422,0.2876955,0.0003007739,0.0006345166,0.0008716512,0.0009591173,0.03666274,0.6541146,0.001573985,0.01588986,0.000144302],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8305455,0.005519984,0.1496681,0.0001831136,0.00009170821,0.0004406917,0.009314481,0.0006400369,0.003596435],"genre_scores_gemma":[0.7096299,0.003734005,0.2711492,0.000495395,0.00007272976,0.000665127,0.01213277,0.0001739894,0.001946917],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002093479,"threshold_uncertainty_score":0.006260574,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02593277602624929,"score_gpt":0.250509947210302,"score_spread":0.2245771711840527,"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."}}