{"id":"W2131491275","doi":"10.1091/mbc.e04-12-1096","title":"Visualization of Vacuolar Acidification-induced Transcription of Genes of Pathogens inside Macrophages","year":2005,"lang":"en","type":"article","venue":"Molecular Biology of the Cell","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":120,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; University of British Columbia; SickKids Foundation; Hospital for Sick Children; University of Toronto","funders":"","keywords":"Vacuole; Biology; Salmonella enterica; Divalent; Biophysics; Efflux; Cell biology; Transcription (linguistics); Regulon; Microbiology; Transcription factor; Biochemistry; Chemistry; Gene; Escherichia coli; Cytoplasm","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0002065354,0.000116633,0.0002428231,0.0000637571,0.00002852257,0.000001317327,0.0002858205,0.0001547596,0.000008222391],"category_scores_gemma":[0.00009216094,0.0000919946,0.0001688924,0.0001323786,0.0002446118,0.000002999949,0.0001139142,0.00004152921,5.971082e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007455431,"about_ca_system_score_gemma":0.00005526463,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002210538,"about_ca_topic_score_gemma":0.0000108071,"domain_scores_codex":[0.9989291,0.0002356312,0.0003890059,0.0001974457,0.0001103096,0.0001385062],"domain_scores_gemma":[0.998958,0.00001198475,0.0003304947,0.0004152185,0.0002623378,0.00002195712],"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":[0.00006592882,0.0001226435,0.00249359,0.000104508,0.00008778467,1.501584e-7,0.0001023344,0.00008740905,0.9959934,0.0001196524,0.00001576748,0.000806823],"study_design_scores_gemma":[0.0003826581,0.0002837807,0.005524687,0.00001413927,0.00004124946,0.000001133458,0.00004219781,0.00002802358,0.9931681,0.00005916183,0.0003824242,0.00007240471],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9930143,0.002859079,0.003569952,0.0001017945,0.00005297127,0.0002211833,0.00006792502,0.000002747101,0.000110038],"genre_scores_gemma":[0.9982392,0.000589092,0.0009987899,0.00002293498,0.00002304888,0.000008758198,0.00006882509,0.00001350282,0.00003586821],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.005224871,"threshold_uncertainty_score":0.3751431,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01308611998990791,"score_gpt":0.2817068658540615,"score_spread":0.2686207458641536,"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."}}