{"id":"W2972940198","doi":"10.1038/s41467-019-12087-8","title":"An in vitro model maintaining taxon-specific functional activities of the gut microbiome","year":2019,"lang":"en","type":"article","venue":"Nature Communications","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":140,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Institute for Advanced Research; University of Toronto; University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada; Ministero dello Sviluppo Economico; Government of Canada; Canadian Institutes of Health Research; Genome Canada; Ontario Genomics; Ontario Ministry of Economic Development and Innovation; Ontario Genomics Institute","keywords":"Microbiome; Gut microbiome; Biology; Computational biology; Metaproteomics; Metagenomics; Taxon; Bioinformatics; Genetics; Gene; Ecology","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":[0.0006872368,0.001132064,0.0007573196,0.0005449862,0.0004647807,0.001190566,0.0008332875,0.0008028123,0.001210374],"category_scores_gemma":[0.0004925937,0.0004593694,0.0007621708,0.0004947183,0.0004358414,0.0006810247,0.0009916722,0.001523023,0.001177948],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003769585,"about_ca_system_score_gemma":0.0005466273,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001310547,"about_ca_topic_score_gemma":0.003080331,"domain_scores_codex":[0.9991977,0.0001662756,0.00008826485,0.0002156117,0.0002461491,0.00008603802],"domain_scores_gemma":[0.9990477,0.0001878477,0.0002840579,0.0002345977,0.0001072376,0.0001385919],"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":[0.00006399681,0.00006011727,0.0006428692,0.00006736616,0.00001082642,0.00004345589,0.0000223008,0.0004038792,0.997362,0.0001517498,0.00008612658,0.001085391],"study_design_scores_gemma":[0.00001351897,0.0006473787,0.005517946,0.0000280364,0.00007331194,0.0003228258,0.00008978017,0.006361582,0.9811871,0.0002469658,0.005479983,0.00003153691],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6297449,0.002852585,0.3464211,0.0007471501,0.0004869111,0.0006707849,0.008684398,0.001670169,0.008721913],"genre_scores_gemma":[0.7328629,0.003419261,0.2455277,0.0005511247,0.0001123375,0.001415684,0.008210231,0.0002736006,0.007627021],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001310547,"threshold_uncertainty_score":0.004049063,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01755468381630482,"score_gpt":0.2791466804430265,"score_spread":0.2615919966267217,"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."}}