nmrML: A Community Supported Open Data Standard for the Description, Storage, and Exchange of NMR Data

Autor: Masashi Yokochi, Matthias S. Klein, Daniel J. Jacob, Christian Ludwig, Andrea Porzel, Kenneth Haug, Ian A. Lewis, Arturas Grauslys, Luis F. de Figueiredo, Reza M. Salek, Andrew R. Jones, Martin Larralde, David S. Wishart, Julian L. Griffin, Jie Hao, Timothy M. D. Ebbels, Joseph A. Cruz, Jason R. Grant, Ulrich L. Günther, Steffen Neumann, Daniel Schober, Philippe Rocca-Serra, Christoph Steinbeck, John M. Easton, Annick Moing, Ana Marcu, Naohiro Kobayashi, Catherine Deborde, Mark R. Viant, Claudio Luchinat, Michael Wilson, Antonio Rosato

Publikováno v: Analytical Chemistry
Analytical Chemistry, American Chemical Society, 2018, 90 (1), pp.649-656. ⟨10.1021/acs.analchem.7b02795⟩

UMR BFP - Equipe Métabolisme; International audience; NMR is a widely used analytical technique with a growing number of repositories available. As a result, demands for a vendor-agnostic, open data format for long-term archiving of NMR data have em

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::406e052a896b35edbcdd64dca3cf965b
https://doi.org/10.1021/acs.analchem.7b02795

Detecting and investigating substrate cycles in a genome-scale human metabolic network

Autor: Christoph Kaleta, Juliane Gebauer, Luis F. de Figueiredo, Stefan Schuster

Publikováno v: FEBS Journal. 279:3192-3202

Substrate cycles, also known as futile cycles, are cyclic metabolic routes that dissipate energy by hydrolysing cofactors such as ATP. They were first described to occur in the muscles of bumblebees and brown adipose tissue in the 1970s. A popular ex

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::4686304eb29f44410fa4f582ef7383dc
https://doi.org/10.1111/j.1742-4658.2012.08700.x

Combining Metabolic Pathway Analysis with Evolutionary Game Theory. Explaining the occurrence of low-yield pathways by an analytic optimization approach

Autor: Christoph Kaleta, Stefan Schuster, Anja Schroeter, Luis F. de Figueiredo

Publikováno v: Biosystems. 105:147-153

Elementary-mode analysis is a powerful method for detecting all potential pathways in a metabolic network and computing the associated molar yields. Metabolic pathways can be interpreted as different strategies of organisms. Thus, methods from Evolut

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::432926412f4e0c9ef709e8b4372b113e
https://doi.org/10.1016/j.biosystems.2011.05.007

Can sugars be produced from fatty acids? A test case for pathway analysis tools

Autor: David A. Fell, Christoph Kaleta, Luis F. de Figueiredo, Stefan Schuster

Publikováno v: Bioinformatics. 24:2615-2621

Motivation: In recent years, several methods have been proposed for determining metabolic pathways in an automated way based on network topology. The aim of this work is to analyse these methods by tackling a concrete example relevant in biochemistry

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::221d4257cd4594669a62c43f47b78b2c
https://doi.org/10.1093/bioinformatics/btn500

Genome-scale metabolic representation of Amycolatopsis balhimycina

Autor: Luis F. de Figueiredo, Wanwipa Vongsangnak, Jette Thykaer, Wolfgang Wohlleben, Jens Nielsen, Tilmann Weber, Evi Stegmann, Jochen Förster

Publikováno v: Vongsangnak, W, Figueiredo, L F, Förster, J, Weber, T, Thykær, J, Stegmann, E, Wohlleben, W & Nielsen, J 2012, ' Genome-scale metabolic representation of Amycolatopsis balhimycina ', Biotechnology and Bioengineering
, vol. 109, no. 7, pp. 1798-1807 . https://doi.org/10.1002/bit.24436

Infection caused by methicillin‐resistant Staphylococcus aureus (MRSA) is an increasing societal problem. Typically, glycopeptide antibiotics are used in the treatment of these infections. The most comprehensively studied glycopeptide antibiotic bi

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7a4388f2c6842d4179145fb27fcb795a
https://pubmed.ncbi.nlm.nih.gov/22252737