{"id":"W4366087654","doi":"10.1186/s13059-023-02924-x","title":"Metabolic independence drives gut microbial colonization and resilience in health and disease","year":2023,"lang":"en","type":"article","venue":"Genome biology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":102,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta; University of Calgary","funders":"Biotechnology and Biological Sciences Research Council; Digestive Diseases Research Core Center, University of Chicago; National Cancer Institute; National Science Foundation; National Institutes of Health; Gastro-Intestinal Research Foundation; National Institute of Diabetes and Digestive and Kidney Diseases; University of Calgary","keywords":"Biology; Colonization; Human genetics; Independence (probability theory); Disease; Resilience (materials science); Metabolic disease; Computational biology; Evolutionary biology; Genetics; Ecology; Gene","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":[0.0002241338,0.00009392963,0.0001417463,0.00009674572,0.00008861641,0.00001014517,0.00008186758,0.000109202,0.000004296507],"category_scores_gemma":[0.00008936171,0.00009205765,0.0000130583,0.0001541259,0.0001447637,0.000003002646,0.0001448834,0.00006871868,0.00000810761],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009155006,"about_ca_system_score_gemma":0.0002505986,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007498083,"about_ca_topic_score_gemma":0.0001759796,"domain_scores_codex":[0.9990417,0.0001132531,0.0001716845,0.0003627564,0.00002446731,0.0002861247],"domain_scores_gemma":[0.9995877,0.000009634514,0.00005745357,0.0001355808,0.0000218664,0.0001877606],"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":[0.00006151695,0.00001401979,0.108641,0.00004797591,0.000005592156,0.000002238406,0.0002210311,0.000011718,0.8892978,0.0004677766,0.0001792695,0.001050035],"study_design_scores_gemma":[0.0005434509,0.0002492916,0.9558766,0.00001206671,0.000003382203,0.00001341043,0.0001211998,0.00003116657,0.0008613258,0.0003726048,0.04174965,0.0001657912],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9910063,0.007318757,0.0001038717,0.001228206,0.00007476495,0.0001969323,0.00004706942,0.00001220559,0.00001189003],"genre_scores_gemma":[0.9896581,0.008686797,0.0001535179,0.0009630005,0.00006853062,0.00001064656,0.0002723197,0.000008396692,0.0001786635],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8884364,"threshold_uncertainty_score":0.3754002,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009102182271776135,"score_gpt":0.275399655425444,"score_spread":0.2662974731536679,"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."}}