{"id":"W3131765257","doi":"10.1038/s41589-020-00724-z","title":"A community resource for paired genomic and metabolomic data mining","year":2021,"lang":"en","type":"article","venue":"Nature Chemical Biology","topic":"Metabolomics and Mass Spectrometry Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":129,"is_retracted":false,"has_abstract":true,"ca_institutions":"Memorial University of Newfoundland","funders":"Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie – Hans-Knöll-Institut; Carl R. Woese Institute for Genomic Biology; National Center for Complementary and Integrative Health; National Institute of General Medical Sciences; National Cancer Institute; Harvard University; Det Sundhedsvidenskabelige Fakultet, Københavns Universitet; School of Chemistry, University of Nottingham; Consejo Superior de Investigaciones Científicas; Fundação para a Ciência e a Tecnologia; Leibniz-Gemeinschaft; Great Lakes Bioenergy Research Center; Universität Potsdam; Directorate for Biological Sciences; Novo Nordisk Foundation Center for Basic Metabolic Research; Novo Nordisk Fonden; Wageningen University and Research; Faculty of Health and Medical Sciences, University of Western Australia; University of Illinois at Urbana-Champaign; Rheinische Friedrich-Wilhelms-Universität Bonn; Princeton University; Universiteit Antwerpen; Northwestern University; Universidade do Porto; Universidade de São Paulo; Wageningen University Fund; Sungkyunkwan University; Jenderal Soedirman University; Technische Universität Berlin; Sunchon National University; University of California, San Diego; Memorial University of Newfoundland; University of Wisconsin-Madison; U.S. Department of Energy; Yale University; Eberhard Karls Universität Tübingen; University of Glasgow; Netherlands eScience Center; Sookmyung Women's University; European Commission; Instituut voor Tropische Geneeskunde; Skaggs School of Pharmacy and Pharmaceutical Sciences; Helsingin Yliopisto; Deutsches Zentrum für Infektionsforschung; Novo Nordisk; Georgia Institute of Technology; National Research Centre; Universidad de Málaga; University of California Merced; National Institutes of Health; Biotechnology and Biological Sciences Research Council; Purdue University; National Science Foundation","keywords":"Metabolomics; Metabolome; Identification (biology); Genomics; Computational biology; Metabolite; Biology; Omics; Data science; Genome; Computer science; Bioinformatics; Genetics; Gene; Ecology; Biochemistry","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.006652551,0.003612683,0.003198654,0.01862828,0.002269713,0.003790235,0.006037032,0.00238645,0.03538292],"category_scores_gemma":[0.02805541,0.00167495,0.002274497,0.02634438,0.0007279769,0.004356022,0.0105036,0.003088115,0.03080391],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001116661,"about_ca_system_score_gemma":0.007557202,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.009396526,"about_ca_topic_score_gemma":0.01733349,"domain_scores_codex":[0.9955561,0.0007491122,0.0007965651,0.000989693,0.001594657,0.0003138464],"domain_scores_gemma":[0.9836187,0.004600869,0.001386804,0.004602427,0.003444738,0.002346517],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.001899742,0.0007126005,0.007680026,0.008015923,0.001073822,0.0023837,0.0006556684,0.00479502,0.02629761,0.009713065,0.7477694,0.1890035],"study_design_scores_gemma":[0.001054517,0.0002226999,0.01287629,0.001639668,0.000661475,0.001593531,0.0005074264,0.02823516,0.01911547,0.03129516,0.9022486,0.0005499026],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.005619109,0.001911064,0.1076111,0.0009913059,0.0002169542,0.001244058,0.7650995,0.1034998,0.01380722],"genre_scores_gemma":[0.008950473,0.0008794682,0.1400933,0.0003708932,0.00006967182,0.001399538,0.8383103,0.007837281,0.002089027],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.03538292,"threshold_uncertainty_score":0.1183677,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03108061247956096,"score_gpt":0.3038772829792303,"score_spread":0.2727966704996694,"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."}}