{"id":"W2558428302","doi":"10.1093/nar/gkw1058","title":"YMDB 2.0: a significantly expanded version of the yeast metabolome database","year":2016,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Metabolomics and Mass Spectrometry Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":177,"is_retracted":false,"has_abstract":true,"ca_institutions":"National Institute for Nanotechnology; University of Alberta","funders":"Genome Alberta; Canadian Institutes of Health Research; Alberta Innovates; Genome Canada","keywords":"Metabolome; Database; Biology; Saccharomyces cerevisiae; Reference database; Visualization; Bioinformatics; Computational biology; Yeast; Computer science; Metabolomics; Data mining; 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":[0.0009313413,0.0001190656,0.0001826455,0.0001024506,0.0001820286,0.00001358773,0.0005702822,0.00009319892,0.0002222334],"category_scores_gemma":[0.0006313986,0.0000632853,0.0001158031,0.0003374094,0.0004217281,0.000006282817,0.0007931094,0.0001398123,0.00005411329],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002040569,"about_ca_system_score_gemma":0.000100329,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002673544,"about_ca_topic_score_gemma":0.0000153608,"domain_scores_codex":[0.9983048,0.0002395207,0.0001936608,0.0003653541,0.0005024439,0.0003942592],"domain_scores_gemma":[0.9987654,0.00004837647,0.0000627276,0.0007893341,0.0002500633,0.00008409004],"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":[0.0001318707,0.00005842804,0.003838211,0.00001240086,0.00006386855,0.00000106054,0.00002564645,1.434381e-7,0.9818809,0.0007941619,0.01041657,0.002776708],"study_design_scores_gemma":[0.0007949682,0.0002015044,0.01120134,0.00002418907,0.00001499023,0.000003535386,0.0001819215,0.000002976305,0.8600891,0.00032068,0.1270503,0.0001144951],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9940535,0.0007515266,0.0002118706,0.0008153161,0.0001466778,0.000233435,0.0001788523,0.000006792407,0.003602018],"genre_scores_gemma":[0.99531,0.00119798,0.0002911093,0.00003947439,0.000143178,0.00001981152,0.00001163701,0.00001960048,0.0029672],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1217918,"threshold_uncertainty_score":0.2580699,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03492675432408771,"score_gpt":0.3169760547744653,"score_spread":0.2820493004503776,"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."}}