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Additional file 1 of Enhanced correlation-based linking of biosynthetic gene clusters to their metabolic products through chemical class matching

Autor: Louwen, Joris J. R., Medema, Marnix H., van der Hooft, Justin J. J.

Additional file 1: Figure S1. MIBiG classes matched to ClassyFire superclasses. Figure S2. antiSMASH-predicted classes matched to NPClassifier superclasses, where matches with counts above five are shown. Figure S3. antiSMASH-predicted classes matche

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MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters.

Autor: Terlouw BR; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Blin K; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark., Navarro-Muñoz JC; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands., Avalon NE; Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0212, USA., Chevrette MG; Department of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA., Egbert S; Department of Chemistry, University of Manitoba, 66 Chancellors Cir, Winnipeg, MB R3T 2N2, Canada., Lee S; Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada., Meijer D; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Recchia MJJ; Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada., Reitz ZL; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., van Santen JA; Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada.; Unnatural Products, 2161 Delaware Ave. Suite A, Santa Cruz, CA 95060, USA., Selem-Mojica N; Centro de Ciencias Matemáticas UNAM, Morelia, México., Tørring T; Department of Biological and Chemical Engineering, Aarhus University, Denmark., Zaroubi L; Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada., Alanjary M; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Aleti G; Food and Animal Sciences, Department of Agricultural and Environmental Sciences, Tennessee State University, Nashville, TN 37209, USA., Aguilar C; Department of Chemistry, Purdue University, West Lafayette, IN, USA., Al-Salihi SAA; Department of Applied Sciences, University of Technology, Iraq., Augustijn HE; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands., Avelar-Rivas JA; Laboratorio Nacional de Genómica para la Biodiversidad-Unidad de Genómica Avanzada, Cinvestav. Km 9.6 Libramiento Norte Carretera Irapuato-León, CP 36824 Irapuato, Gto., México., Avitia-Domínguez LA; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands.; Laboratorio Nacional de Genómica para la Biodiversidad-Unidad de Genómica Avanzada, Cinvestav. Km 9.6 Libramiento Norte Carretera Irapuato-León, CP 36824 Irapuato, Gto., México., Barona-Gómez F; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands.; Laboratorio Nacional de Genómica para la Biodiversidad-Unidad de Genómica Avanzada, Cinvestav. Km 9.6 Libramiento Norte Carretera Irapuato-León, CP 36824 Irapuato, Gto., México., Bernaldo-Agüero J; Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, México., Bielinski VA; Synthetic Biology and Bioenergy Group, J. Craig Venter Institute, La Jolla, CA 92037, USA., Biermann F; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Institute of Molecular Bio Science, Goethe-University Frankfurt, D-60438 Frankfurt am Main, Germany.; LOEWE Center for Translational Biodiversity Genomics (TBG), Senckenberganlage 25, 60325 Frankfurt am Main, Germany., Booth TJ; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark.; School of Molecular Sciences, University of Western Australia, Perth, Australia., Carrion Bravo VJ; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands.; Departamento de Microbiología, Instituto de Hortofruticultura Subtropical y Mediterránea 'La Mayora', Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Universidad de Málaga, Málaga, Spain.; Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands., Castelo-Branco R; Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), University of Porto, Portugal.; Faculty of Sciences, University of Porto, 4150-179 Porto, Portugal., Chagas FO; Instituto de Pesquisas de Produtos Naturais Walter Mors, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21941-599, Brazil., Cruz-Morales P; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark., Du C; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands., Duncan KR; University of Strathclyde, Strathclyde Institute of Pharmacy and Biomedical Sciences, 141 Cathedral Street, Glasgow, G4 ORE UK., Gavriilidou A; Translational Genome Mining for Natural Products, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), University of Tübingen, Tübingen, Germany.; Interfaculty Institute for Biomedical Informatics (IBMI), University of Tübingen, Tübingen, Germany., Gayrard D; Department of Molecular Microbiology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK., Gutiérrez-García K; Department of Embryology, Carnegie Institution for Science, 3520 San Martin Drive, Baltimore, MD 21218, USA., Haslinger K; Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands., Helfrich EJN; Institute of Molecular Bio Science, Goethe-University Frankfurt, D-60438 Frankfurt am Main, Germany.; LOEWE Center for Translational Biodiversity Genomics (TBG), Senckenberganlage 25, 60325 Frankfurt am Main, Germany., van der Hooft JJJ; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Department of Biochemistry, University of Johannesburg, Auckland Park, Johannesburg 2006, South Africa., Jati AP; Indonesian Society of Bioinformatics And Biodiversity, Indonesia., Kalkreuter E; Department of Chemistry, University of Florida Scripps Biomedical Research, 110 Scripps Way, Jupiter, FL 33458, USA., Kalyvas N; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands., Kang KB; College of Pharmacy, Sookmyung Women's University, Seoul, South Korea., Kautsar S; Department of Chemistry, University of Florida Scripps Biomedical Research, 110 Scripps Way, Jupiter, FL 33458, USA., Kim W; Korean Lichen Research Institute, Sunchon National Universtiy, Suncheon, South Korea., Kunjapur AM; Department of Chemical & Biomolecular Engineering, University of Delaware, Newark, DE 19716, USA., Li YX; Department of Chemistry, The University of Hong Kong, Pokfulam Road, Hong Kong, P.R. China., Lin GM; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA., Loureiro C; Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708WE, Wageningen, The Netherlands., Louwen JJR; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Louwen NLL; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Lund G; Sustainable Soils and Crops, Rothamsted Research, Harpenden, Hertfordshire, UK., Parra J; Instituto de Investigaciones Farmacéuticas (INIFAR), Facultad de Farmacia, Universidad de Costa Rica, San José, 11501-2060, Costa Rica.; Centro de Investigaciones en Productos Naturales (CIPRONA), Universidad de Costa Rica, San José, 11501-2060, Costa Rica.; Centro Nacional de Innovaciones Biotecnológicas (CENIBiot), CeNAT-CONARE, 1174-1200, San José, Costa Rica., Philmus B; Department of Pharmaceutical Sciences, Oregon State University, USA., Pourmohsenin B; Translational Genome Mining for Natural Products, Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), University of Tübingen, Tübingen, Germany.; Interfaculty Institute for Biomedical Informatics (IBMI), University of Tübingen, Tübingen, Germany., Pronk LJU; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Rego A; Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), University of Porto, Portugal.; Institute of Biomedical Sciences Abel Salazar (ICBAS), University of Porto, Portugal., Rex DAB; Centre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Mangalore 575018, India., Robinson S; Department of Environmental Microbiology, Eawag: Swiss Federal Institute for Aquatic Science and Technology, Überlandstrasse 133, CH-8600 Dübendorf, Switzerland., Rosas-Becerra LR; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands.; Laboratorio Nacional de Genómica para la Biodiversidad-Unidad de Genómica Avanzada, Cinvestav. Km 9.6 Libramiento Norte Carretera Irapuato-León, CP 36824 Irapuato, Gto., México., Roxborough ET; School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, UK., Schorn MA; Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708WE, Wageningen, The Netherlands., Scobie DJ; University of Strathclyde, Strathclyde Institute of Pharmacy and Biomedical Sciences, 141 Cathedral Street, Glasgow, G4 ORE UK., Singh KS; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Sokolova N; Department of Chemical and Pharmaceutical Biology, Groningen Research Institute of Pharmacy, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands., Tang X; Institute of Chemical Biology, Shenzhen Bay Laboratory, Shenzhen 518132, China., Udwary D; DOE Joint Genome Institute, Lawrence Berkeley National Lab, Berkeley, CA, USA., Vigneshwari A; Department of Microbiology, University of Szeged, Hungary., Vind K; Host-Microbe Interactomics Group, Wageningen University, 6708 WD Wageningen, The Netherlands.; NAICONS Srl, 20139 Milan, Italy., Vromans SPJM; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Waschulin V; School of Life Sciences, The University of Warwick, Coventry CV4 7AL, UK., Williams SE; School of Biochemistry, University of Bristol, University Walk, Bristol BS8 1TD, UK., Winter JM; Department of Medicinal Chemistry, University of Utah, Salt Lake City, UT 84112, USA., Witte TE; Department of Chemistry and Biomolecular Sciences, University of Ottawa, Ottawa, Canada., Xie H; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Key laboratory of Detection for Biotoxins, Ministry of Agriculture and Rural Affairs and Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430061, China., Yang D; Department of Chemistry and Natural Products Discovery Center, UF Scripps Biomedical Research, University of Florida, Jupiter, FL 33458, USA., Yu J; SUSTech-PKU Institute of Plant and Food Science, Department of Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China., Zdouc M; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands., Zhong Z; Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708WE, Wageningen, The Netherlands., Collemare J; Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands., Linington RG; Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada., Weber T; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark., Medema MH; Bioinformatics Group, Wageningen University, Droevendaalsesteeg, 6708 PB Wageningen, The Netherlands.; Institute of Biology, Leiden University, Sylviusweg 72, 2333BE Leiden, The Netherlands.

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2023 Jan 06; Vol. 51 (D1), pp. D603-D610.