Author, as appears in the article.: Pah, A R; Guimera, R; Mustoe, A M; Amaral, L A N
Department: Enginyeria Química
URV's Author/s: Guimera Manrique, Roger
Keywords: User-computer interface Transportation network Signal transduction Reconstruction Motifs Models, biological Metabolome Kegg Information storage and retrieval Humans Genomics Genes Generation Evolution Databases, genetic Computer simulation Cartography Biochemical networks Annotation Animals
Abstract: The difficulty in annotating the vast amounts of biological information poses one of the greatest current challenges in biological research. The number of genomic, proteomic, and metabolomic datasets has increased dramatically over the last two decades, far outstripping the pace of curation efforts. Here, we tackle the challenge of curating metabolic network reconstructions. We predict organismal metabolic networks using sequence homology and a global metabolic network constructed from all available organismal networks. While sequence homology has been a standard to annotate metabolic networks it has been faulted for its lack of predictive power. We show, however, that when homology is used with a global metabolic network one is able to predict organismal metabolic networks that have enhanced network connectivity. Additionally, we compare the annotation behavior of current database curation efforts with our predictions and find that curation efforts are biased towards adding (rather than removing) reactions to organismal networks.
Thematic Areas: Zootecnia / recursos pesqueiros Saúde coletiva Química Psicología Odontología Nutrição Multidisciplinary sciences Multidisciplinary Medicina veterinaria Medicina iii Medicina ii Medicina i Materiais Matemática / probabilidade e estatística Letras / linguística Interdisciplinar Geografía Geociências Farmacia Engenharias iv Engenharias iii Engenharias ii Enfermagem Educação física Educação Economia Ciências biológicas iii Ciências biológicas ii Ciências biológicas i Ciências ambientais Ciências agrárias i Ciência de alimentos Ciência da computação Biotecnología Biodiversidade Astronomia / física
licence for use: https://creativecommons.org/licenses/by/3.0/es/
Author's mail: roger.guimera@urv.cat
Author identifier: 0000-0002-3597-4310
Record's date: 2024-10-26
Papper version: info:eu-repo/semantics/publishedVersion
Link to the original source: https://www.nature.com/articles/srep01695
Licence document URL: https://repositori.urv.cat/ca/proteccio-de-dades/
Papper original source: Scientific Reports. 3 1695-
APA: Pah, A R; Guimera, R; Mustoe, A M; Amaral, L A N (2013). Use of a global metabolic network to curate organismal metabolic networks. Scientific Reports, 3(), 1695-. DOI: 10.1038/srep01695
Article's DOI: 10.1038/srep01695
Entity: Universitat Rovira i Virgili
Journal publication year: 2013
Publication Type: Journal Publications
Repositori URV