{"id":"W4415308573","doi":"10.1128/mra.01139-24","title":"Assessment of bacterial proteome remodeling under virulence-inducing conditions for molecular pharming applications","year":2025,"lang":"en","type":"article","venue":"Microbiology Resource Announcements","topic":"Transgenic Plants and Applications","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Performance Plants (Canada); University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Virulence; Proteome; Pathogen; Human pathogen; Bacterial protein; Proteomics","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":[0.0001672299,0.000138853,0.0001722794,0.00007132388,0.000192401,0.00001301189,0.0002415295,0.0001424198,0.00001392348],"category_scores_gemma":[0.000007924732,0.0001431626,0.00009335187,0.0001150849,0.0001029225,0.000003700339,0.00007049375,0.00007460811,0.000001561691],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002545038,"about_ca_system_score_gemma":0.0001404332,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000004923777,"about_ca_topic_score_gemma":0.000004699752,"domain_scores_codex":[0.9989777,0.000039315,0.0003218563,0.0003905727,0.00003608075,0.0002345231],"domain_scores_gemma":[0.9994135,0.00001772737,0.000121546,0.0003127484,0.00010401,0.00003045481],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00002576788,0.00009924419,0.0001818634,0.00003238256,0.0001251046,9.432756e-8,0.00001011581,0.0006392541,0.9967885,0.001168333,0.0006023131,0.0003270258],"study_design_scores_gemma":[0.00151746,0.0001267599,0.0001991381,0.00006794705,0.0001140998,0.000008665959,0.000144308,0.0002055524,0.3851589,0.000502394,0.6116983,0.0002564583],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5872468,0.0002141052,0.4053566,0.0002717994,0.00007564513,0.001583969,0.003967932,0.00001937978,0.001263659],"genre_scores_gemma":[0.9812099,0.00003036908,0.005194839,0.0004975256,0.00007300316,0.0008961444,0.0116662,0.00001511089,0.0004168973],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6116297,"threshold_uncertainty_score":0.5838003,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01151813594775094,"score_gpt":0.3182845965797955,"score_spread":0.3067664606320445,"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."}}