Author, as appears in the article.: Picart-Armada, Sergio; Fernandez-Albert, Francesc; Vinaixa, Maria; Rodriguez, Miguel A; Aivio, Suvi; Stracker, Travis H; Yanes, Oscar; Perera-Lluna, Alexandre
Department: Enginyeria Electrònica, Elèctrica i Automàtica
URV's Author/s: Rodríguez Chacón, Matilde / Vinaixa Crevillent, Maria / Yanes Torrado, Óscar
Keywords: Tool Pathways Lc/ms
Abstract: Metabolomics experiments identify metabolites whose abundance varies as the conditions under study change. Pathway enrichment tools help in the identification of key metabolic processes and in building a plausible biological explanation for these variations. Although several methods are available for pathway enrichment using experimental evidence, metabolomics does not yet have a comprehensive overview in a network layout at multiple molecular levels. We propose a novel pathway enrichment procedure for analysing summary metabolomics data based on sub-network analysis in a graph representation of a reference database. Relevant entries are extracted from the database according to statistical measures over a null diffusive process that accounts for network topology and pathway crosstalk. Entries are reported as a sub-pathway network, including not only pathways, but also modules, enzymes, reactions and possibly other compound candidates for further analyses. This provides a richer biological context, suitable for generating new study hypotheses and potential enzymatic targets. Using this method, we report results from cells depleted for an uncharacterised mitochondrial gene using GC and LC-MS data and employing KEGG as a knowledge base. Partial validation is provided with NMR-based tracking of 13C glucose labelling of these cells.
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licence for use: https://creativecommons.org/licenses/by/3.0/es/
ISSN: 19326203
Author's mail: maria.vinaixa@urv.cat oscar.yanes@urv.cat matilde.rodriguez@urv.cat maria.vinaixa@urv.cat
Author identifier: 0000-0001-9804-0171 0000-0003-3695-7157 0000-0001-9804-0171
Record's date: 2024-10-12
Papper version: info:eu-repo/semantics/publishedVersion
Licence document URL: https://repositori.urv.cat/ca/proteccio-de-dades/
Papper original source: Plos One. 12 (12): 467-
APA: Picart-Armada, Sergio; Fernandez-Albert, Francesc; Vinaixa, Maria; Rodriguez, Miguel A; Aivio, Suvi; Stracker, Travis H; Yanes, Oscar; Perera-Lluna, A (2017). Null diffusion-based enrichment for metabolomics data. Plos One, 12(12), 467-. DOI: 10.1371/journal.pone.0189012
Entity: Universitat Rovira i Virgili
Journal publication year: 2017
Publication Type: Journal Publications
Repositori URV