{"id":"W3133950981","doi":"10.1101/2021.03.02.433653","title":"Metabolic independence drives gut microbial colonization and resilience in health and disease","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":34,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta; University of Calgary","funders":"Biotechnology and Biological Sciences Research Council; National Science Foundation; National Institutes of Health; Gastro-Intestinal Research Foundation; National Institute of Diabetes and Digestive and Kidney Diseases; University of Calgary","keywords":"Microbiome; Dysbiosis; Metagenomics; Biology; Gut flora; Human Microbiome Project; Fecal bacteriotherapy; Disease; Genome; Gut microbiome; Mechanism (biology); Genetics; Evolutionary biology; Computational biology; Ecology; Human microbiome; Immunology; Gene; Medicine","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004001826,0.0003197153,0.0003883236,0.000134564,0.0001376706,0.0001486723,0.0002054138,0.0003723555,0.000004431026],"category_scores_gemma":[0.0002916319,0.0003721769,0.00004275839,0.0002060365,0.0001615853,0.00001307743,0.0005928789,0.0003928347,0.000001303828],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005244373,"about_ca_system_score_gemma":0.002284349,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001344828,"about_ca_topic_score_gemma":0.0000703478,"domain_scores_codex":[0.9978138,0.0002205002,0.0004006503,0.001019623,0.0001330962,0.0004123618],"domain_scores_gemma":[0.9984655,0.00001100495,0.0002514618,0.0005773212,0.0001847044,0.0005100227],"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":[0.00004760558,0.00006992181,0.06811348,0.0005661575,0.00002244011,0.00001851154,0.00003032539,0.00002761841,0.9308977,0.0001032241,0.00009892546,0.000004082754],"study_design_scores_gemma":[0.0007595649,0.00009253025,0.9085275,0.0006010469,0.00003179113,1.354536e-7,0.00002161175,0.0001016024,0.08550972,0.000001844261,0.003704052,0.0006485783],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9747977,0.02332959,0.0004588157,0.0005446576,0.0002464526,0.0004918217,0.000106249,0.00002401159,6.879982e-7],"genre_scores_gemma":[0.9851717,0.01175588,0.001956857,0.0008717325,0.0001476839,0.00004107483,0.000004396626,0.00004455458,0.000006076191],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.845388,"threshold_uncertainty_score":0.999873,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007483154803887542,"score_gpt":0.2345921579384462,"score_spread":0.2271090031345586,"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."}}