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https://hdl.handle.net/1822/64418| Título: | MEMOTE for standardized genome-scale metabolic model testing |
| Autor(es): | Lieven, Christian Beber, Moritz E. Olivier, Brett G. Bergmann, Frank T. Ataman, Meric Babaei, Parizad Bartell, Jennifer A. Blank, Lars M. Chauhan, Siddharth Correia, Kevin Diener, Christian Dräger, Andreas Ebert, Birgitta E. Edirisinghe, Janaka N. Faria, José P. Feist, Adam M. Fengos, Georgios Fleming, Ronan M. T. García-Jiménez, Beatriz Hatzimanikatis, Vassily van Helvoirt, Wout Henry, Christopher S. Hermjakob, Henning Herrgård, Markus J. Kaafarani, Ali Kim, Hyun Uk King, Zachary Klamt, Steffen Klipp, Edda Koehorst, Jasper J. König, Matthias Lakshmanan, Meiyappan Lee, Dong-Yup Lee, Sang Yup Lee, Sunjae Lewis, Nathan E. Liu, Filipe Ma, Hongwu Machado, Daniel Mahadevan, Radhakrishnan Maia, Paulo Mardinoglu, Adil Medlock, Gregory L. Monk, Jonathan M. Nielsen, Jens Nielsen, Lars Keld Nogales, Juan Nookaew, Intawat Palsson, Bernhard O. Papin, Jason A. Patil, Kiran R. Poolman, Mark Price, Nathan D. Resendis-Antonio, Osbaldo Richelle, Anne Rocha, I. Sánchez, Benjamín J. Schaap, Peter J. Malik Sheriff, Rahuman S. Shoaie, Saeed Sonnenschein, Nikolaus Teusink, Bas Vilaça, Paulo Ricardo Carvalho Vik, Jon Olav Wodke, Judith A. H. Xavier, Joana C. Yuan, Qianqian Zakhartsev, Maksim Zhang, Cheng |
| Data: | Mar-2020 |
| Editora: | Springer Nature |
| Revista: | Nature Biotechnology |
| Citação: | Lieven, Christian; Beber, Moritz E.; Olivier, Brett G.; Bergmann, Frank T.; Ataman, Meric; Babaei, Parizad; Bartell, Jennifer A.; Blank, Lars M.; Chauhan, Siddharth; Correia, Kevin; Diener, Christian; Dräger, Andreas; Ebert, Birgitta E.; Edirisinghe, Janaka N.; Faria, José P.; Feist, Adam M.; Fengos, Georgios; Fleming, Ronan M. T.; García-Jiménez, Beatriz; Hatzimanikatis, Vassily; van Helvoirt, Wout; Henry, Christopher S.; Hermjakob, Henning; Herrgård, Markus J.; Kaafarani, Ali; Kim, Hyun Uk; King, Zachary; Klamt, Steffen; Klipp, Edda; Koehorst, Jasper J.; König, Matthias; Lakshmanan, Meiyappan; Lee, Dong-Yup; Lee, Sang Yup; Lee, Sunjae; Lewis, Nathan E.; Liu, Filipe; Ma, Hongwu; Machado, Daniel; Mahadevan, Radhakrishnan; Maia, Paulo; Mardinoglu, Adil; Medlock, Gregory L.; Monk, Jonathan M.; Nielsen, Jens; Nielsen, Lars Keld; Nogales, Juan; Nookaew, Intawat; Palsson, Bernhard O.; Papin, Jason A.; Patil, Kiran R.; Poolman, Mark; Price, Nathan D.; Resendis-Antonio, Osbaldo; Richelle, Anne; Rocha, Isabel; Sánchez, Benjamín J.; Schaap, Peter J.; Malik Sheriff, Rahuman S.; Shoaie, Saeed; Sonnenschein, Nikolaus; Teusink, Bas; Vilaça, P.; Vik, Jon Olav; Wodke, Judith A. H.; Xavier, Joana C.; Yuan, Qianqian; Zakhartsev, Maksim; Zhang, Cheng, MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology, 38, 272-276, 2020 |
| Resumo(s): | Reconstructing metabolic reaction networks enables the development of testable hypotheses of an organisms metabolism under different conditions1. State-of-the-art genome-scale metabolic models (GEMs) can include thousands of metabolites and reactions that are assigned to subcellular locations. Geneproteinreaction (GPR) rules and annotations using database information can add meta-information to GEMs. GEMs with metadata can be built using standard reconstruction protocols2, and guidelines have been put in place for tracking provenance and enabling interoperability, but a standardized means of quality control for GEMs is lacking3. Here we report a community effort to develop a test suite named MEMOTE (for metabolic model tests) to assess GEM quality. |
| Tipo: | Carta ao editor |
| Descrição: | Supplementary information is available for this paper at https://doi.org/10.1038/s41587-020-0446-y |
| URI: | https://hdl.handle.net/1822/64418 |
| DOI: | 10.1038/s41587-020-0446-y |
| ISSN: | 1087-0156 |
| Arbitragem científica: | yes |
| Acesso: | Acesso aberto |
| Aparece nas coleções: |
Ficheiros deste registo:
| Ficheiro | Descrição | Tamanho | Formato | |
|---|---|---|---|---|
| document_53552_1.pdf | 1,92 MB | Adobe PDF | Ver/Abrir |
