{"id":"W3126277868","doi":"10.1016/j.chom.2021.01.003","title":"Rapid transcriptional and metabolic adaptation of intestinal microbes to host immune activation","year":2021,"lang":"en","type":"article","venue":"Cell Host & Microbe","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":105,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"National Institute of Allergy and Infectious Diseases; National Cancer Institute; National Institutes of Health; MedImmune; Celgene; Bristol-Myers Squibb; National Institute of Diabetes and Digestive and Kidney Diseases; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; Canadian Institutes of Health Research; Novartis; Cancer Research Institute","keywords":"Biology; Immune system; Metabolome; Transcriptome; Bacteria; Microbiology; Microbiome; Effector; Immunity; Flagellin; Metabolite; Innate immune system; Cell biology; Gene; Immunology; Gene expression; Genetics; Biochemistry","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001087031,0.0001398764,0.0001783928,0.00005904472,0.00007530126,0.00001947662,0.00008416916,0.0001012466,0.0000673207],"category_scores_gemma":[0.00002852524,0.0001514323,0.00007175303,0.0001326349,0.00005433915,0.000006745928,0.00006062129,0.00008436237,0.000009836282],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001055689,"about_ca_system_score_gemma":0.0001670544,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008308527,"about_ca_topic_score_gemma":0.00004402576,"domain_scores_codex":[0.9991355,0.00005547554,0.0002582453,0.0003060702,0.00005545332,0.0001892885],"domain_scores_gemma":[0.9994408,0.00001120446,0.00008600039,0.0001862444,0.000202283,0.0000734919],"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":[0.0000735417,0.0001064242,0.0002964196,0.00007746831,0.00001912939,0.000001043696,0.0003468594,0.000007979356,0.9969708,0.00006603191,0.0004081701,0.001626173],"study_design_scores_gemma":[0.0005158986,0.0001344555,0.03476741,0.00003900701,0.00002239349,0.00003343304,0.0003109061,0.000004979474,0.8986843,0.000003775821,0.06534714,0.0001363231],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9858693,0.009510715,0.003693486,0.0003901588,0.000101838,0.0001651217,0.00005450513,0.000006692853,0.0002082034],"genre_scores_gemma":[0.9906974,0.001073473,0.006593545,0.000470978,0.00008500178,0.000007212374,0.0003992484,0.00001994033,0.000653233],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09828647,"threshold_uncertainty_score":0.6175231,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01235279043293767,"score_gpt":0.2332244928425763,"score_spread":0.2208717024096386,"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."}}