{"id":"W3010629926","doi":"10.1038/s41587-020-0446-y","title":"MEMOTE for standardized genome-scale metabolic model testing","year":2020,"lang":"en","type":"letter","venue":"Nature Biotechnology","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":549,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto","funders":"Argonne National Laboratory; Centro Nacional de Biotecnología; Biological and Environmental Research; National Institute of General Medical Sciences; National Cancer Institute; Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa; Max Planck Institute for Dynamics of Complex Technical Systems Magdeburg; Biotechnology and Biological Sciences Research Council; Directorate for Biological Sciences; National Institutes of Health; Advanced Scientific Computing Research; German Network for Bioinformatics Infrastructure; Novo Nordisk Fonden; University of California, San Diego; Norges Miljø- og Biovitenskapelige Universitet; Eli Lilly and Company; Danmarks Tekniske Universitet; RWTH Aachen University; Korea Advanced Institute of Science and Technology; Humboldt-Universität zu Berlin; Knut och Alice Wallenbergs Stiftelse; Universidad Politécnica de Madrid; Rural Development Administration; U.S. National Library of Medicine; Chalmers Tekniska Högskola; Hanzehogeschool Groningen; Sungkyunkwan University; Universiteit Leiden; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; Eberhard Karls Universität Tübingen; School of Medicine, University of California, San Diego; Universidade Nova de Lisboa; Norges Forskningsråd; Kungliga Tekniska Högskolan; National Center for Complementary and Integrative Health; Vrije Universiteit Amsterdam; University of Toronto; Chinese Academy of Sciences; Oxford Brookes University; Deutsche Forschungsgemeinschaft; National Research Foundation; Innovationsfonden; Bundesministerium für Bildung und Forschung; Wellcome Trust; Ministry of Science and ICT, South Korea; Coordinación de la Investigación Científica; European Molecular Biology Laboratory; Novo Nordisk; Consejo Superior de Investigaciones Científicas; Agency for Science, Technology and Research; Deutsches Zentrum für Infektionsforschung; Wageningen University and Research; Commonwealth Scientific and Industrial Research Organisation; University of Arkansas for Medical Sciences; Bill and Melinda Gates Foundation; Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria; Universidade do Minho; W. M. Keck Foundation; King's College London; European Bioinformatics Institute; Washington Research Foundation; European Commission; U.S. Department of Energy; University of Queensland; Science for Life Laboratory; National Science Foundation","keywords":"European union; Excellence; Political science; Library science; European commission; Basic research; Research council; Public administration; Management; Business; Economics; International trade; Computer science; Government (linguistics); Law; Philosophy","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":["metaepi_narrow","research_integrity"],"consensus_categories":["research_integrity"],"category_scores_codex":[0.0001504221,0.0004875957,0.0006259691,0.0001867577,0.0001131616,0.0000274562,0.0005644257,0.006209576,0.000003592577],"category_scores_gemma":[0.0006042907,0.0004632761,0.0002599109,0.0003022091,0.0001283684,0.000002598104,0.0002039409,0.002749886,0.000006733988],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002602746,"about_ca_system_score_gemma":0.0001464139,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000003204978,"about_ca_topic_score_gemma":0.000002298234,"domain_scores_codex":[0.9978179,0.00002805533,0.0003304309,0.00111071,0.0001614926,0.0005513992],"domain_scores_gemma":[0.9987701,0.000007825822,0.0001969179,0.0007609583,0.0002122394,0.00005193939],"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":[0.00003539081,0.000006447534,2.929476e-7,0.00009184204,0.0001048133,0.000004981206,0.000003816928,0.00009984078,0.690932,0.00002268091,0.3048875,0.00381045],"study_design_scores_gemma":[0.0003062425,0.00009910244,7.121519e-7,0.00001053388,0.00009884431,0.00003386349,0.000001582125,0.0003753812,0.3477264,0.0001791658,0.6508386,0.000329572],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"commentary","genre_gemma":"commentary","genre_scores_codex":[0.003622124,0.021985,0.1018626,0.8659678,0.002275602,0.001547797,0.001870886,0.0006622152,0.0002059899],"genre_scores_gemma":[0.01005572,0.003232767,0.3438357,0.5982319,0.03330627,0.000257055,0.006901872,0.0005862716,0.003592397],"genre_candidate":"commentary","genre_consensus":"commentary","teacher_disagreement_score":0.3459511,"threshold_uncertainty_score":0.9997819,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00960421020944565,"score_gpt":0.2296769343945973,"score_spread":0.2200727241851517,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). 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