{"id":"W3184405228","doi":"10.15252/msb.202010099","title":"Genome‐scale metabolic modeling reveals key features of a minimal gene set","year":2021,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Sherbrooke","funders":"Fonds de recherche du Québec – Nature et technologies; Natural Sciences and Engineering Research Council of Canada; Novo Nordisk Fonden; Novo Nordisk","keywords":"Biology; Genome; In silico; Computational biology; Gene; Metabolic network; Model organism; Organism; Genetics","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":[0.0002858924,0.000215982,0.0004268732,0.00007527415,0.00004159503,0.00001573007,0.0001831861,0.0003051945,0.000005686701],"category_scores_gemma":[0.00009737915,0.0002043926,0.0001698476,0.0001806972,0.00005192992,0.00000247757,0.0001221656,0.00009317716,0.00000431333],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007796956,"about_ca_system_score_gemma":0.00006738546,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006763152,"about_ca_topic_score_gemma":0.000008275715,"domain_scores_codex":[0.9984463,0.0002176694,0.0003973338,0.0005407362,0.00008600947,0.0003118835],"domain_scores_gemma":[0.9990061,0.000002366834,0.000117069,0.0005592434,0.0002390922,0.00007612127],"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":[0.00002505121,0.00003103108,0.0001196267,0.00006451223,0.0001499763,0.000008237585,0.00004324215,0.003656226,0.9953622,0.0002833234,0.00009591751,0.0001606874],"study_design_scores_gemma":[0.0003164618,0.00009346481,0.0003420837,0.00001741594,0.0000595358,0.0003030977,0.00005802033,0.0002315379,0.9804198,0.0000167411,0.01789797,0.0002438582],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9270397,0.04437298,0.02741536,0.0000587978,0.0006329736,0.0001726507,0.0001007082,0.00002029904,0.0001864631],"genre_scores_gemma":[0.9954534,0.0006743469,0.00222705,0.00005509391,0.0005072989,0.00002483529,0.0005257906,0.00003233568,0.0004998935],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06841359,"threshold_uncertainty_score":0.833489,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00867065859917335,"score_gpt":0.2292108246655821,"score_spread":0.2205401660664087,"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."}}