{"id":"W3213940119","doi":"10.1080/19490976.2021.1994832","title":"E.coli Nissle increases transcription of flagella assembly and formate hydrogenlyase genes in response to colitis","year":2021,"lang":"en","type":"article","venue":"Gut Microbes","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"SickKids Foundation; Hospital for Sick Children; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Downregulation and upregulation; Transcriptome; Transcriptional regulation; Gene; Microbiology; Escherichia coli; Population; Nitric oxide; Inflammation; Motility; Probiotic; Transcription (linguistics); Gene expression; Bacteria; Immunology; Cell biology; Genetics; 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":[],"consensus_categories":[],"category_scores_codex":[0.0002503759,0.0001250954,0.0001879807,0.00008122092,0.00005166223,0.00001877138,0.00007709231,0.0001217596,0.0000179905],"category_scores_gemma":[0.00005138927,0.0001360653,0.0000535127,0.0001240994,0.00004061639,0.00000561854,0.00007298109,0.0000484464,0.000006791342],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001741653,"about_ca_system_score_gemma":0.00016089,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002899317,"about_ca_topic_score_gemma":0.00115281,"domain_scores_codex":[0.9990121,0.000159833,0.000262323,0.0002674179,0.00004911606,0.0002492372],"domain_scores_gemma":[0.9995537,0.00001641558,0.00004592721,0.0002063759,0.00007557284,0.0001020421],"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":[0.0006095854,0.00009029759,0.00145615,0.0001009137,0.00001388811,0.00001795359,0.0002185916,0.000007279289,0.9960788,0.0000152616,0.0007307056,0.0006605085],"study_design_scores_gemma":[0.0006761409,0.0001810001,0.04373794,0.00005659336,0.00001160232,0.00009090493,0.0002334752,0.000004318593,0.9284227,0.00001376998,0.02643015,0.0001413593],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9954538,0.003754396,0.00005611255,0.0002793007,0.00004626986,0.000185385,0.0001392443,0.000006496556,0.00007899935],"genre_scores_gemma":[0.9969324,0.001114145,0.0008591267,0.0004793956,0.0000336428,0.00001166015,0.0001057804,0.00001538907,0.0004484489],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06765612,"threshold_uncertainty_score":0.5548583,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008180391419194714,"score_gpt":0.2499039708015712,"score_spread":0.2417235793823765,"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."}}