Francisco Planes
Francisco Planes
TECNUN and CEIT
Verified email at tecnun.es
Title
Cited by
Cited by
Year
Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v. 3.0
L Heirendt, S Arreckx, T Pfau, SN Mendoza, A Richelle, A Heinken, ...
Nature protocols 14 (3), 639-702, 2019
2272019
Computing the shortest elementary flux modes in genome-scale metabolic networks
LF De Figueiredo, A Podhorski, A Rubio, C Kaleta, JE Beasley, ...
Bioinformatics 25 (23), 3158-3165, 2009
1922009
Joint analysis of miRNA and mRNA expression data
A Muniategui, J Pey, FJ Planes, A Rubio
Briefings in bioinformatics 14 (3), 263-278, 2013
1132013
A critical examination of stoichiometric and path-finding approaches to metabolic pathways
FJ Planes, JE Beasley
Briefings in bioinformatics 9 (5), 422-436, 2008
672008
Exploring metabolic pathways in genome-scale networks via generating flux modes
A Rezola, LF de Figueiredo, M Brock, J Pey, A Podhorski, C Wittmann, ...
Bioinformatics 27 (4), 534-540, 2011
622011
Bioinformatic progress and applications in metaproteogenomics for bridging the gap between genomic sequences and metabolic functions in microbial communities
J Seifert, FA Herbst, P Halkjćr Nielsen, FJ Planes, N Jehmlich, M Ferrer, ...
Proteomics 13 (18-19), 2786-2804, 2013
572013
Path finding methods accounting for stoichiometry in metabolic networks
J Pey, J Prada, JE Beasley, FJ Planes
Genome biology 12 (5), R49, 2011
472011
Recovering metabolic pathways via optimization
JE Beasley, FJ Planes
Bioinformatics 23 (1), 92-98, 2007
472007
Path finding approaches and metabolic pathways
FJ Planes, JE Beasley
Discrete Applied Mathematics 157 (10), 2244-2256, 2009
322009
Advances in network-based metabolic pathway analysis and gene expression data integration
A Rezola, J Pey, L Tobalina, Á Rubio, JE Beasley, FJ Planes
Briefings in bioinformatics 16 (2), 265-279, 2015
312015
Direct calculation of elementary flux modes satisfying several biological constraints in genome-scale metabolic networks
J Pey, FJ Planes
Bioinformatics 30 (15), 2197-2203, 2014
312014
Selection of human tissue-specific elementary flux modes using gene expression data
A Rezola, J Pey, LF de Figueiredo, A Podhorski, S Schuster, A Rubio, ...
Bioinformatics 29 (16), 2009-2016, 2013
272013
An in-silico approach to predict and exploit synthetic lethality in cancer metabolism
I Apaolaza, E San José-Eneriz, L Tobalina, E Miranda, L Garate, X Agirre, ...
Nature communications 8 (1), 1-9, 2017
252017
Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data
L Tobalina, R Bargiela, J Pey, FA Herbst, I Lores, D Rojo, C Barbas, ...
Bioinformatics 31 (11), 1771-1779, 2015
252015
CANCERTOOL: a visualization and representation interface to exploit cancer datasets
AR Cortazar, V Torrano, N Martín-Martín, A Caro-Maldonado, L Camacho, ...
Cancer research 78 (21), 6320-6328, 2018
232018
Refining carbon flux paths using atomic trace data
J Pey, FJ Planes, JE Beasley
Bioinformatics 30 (7), 975-980, 2014
202014
TreeEFM: calculating elementary flux modes using linear optimization in a tree-based algorithm
J Pey, JA Villar, L Tobalina, A Rezola, JM García, JE Beasley, FJ Planes
Bioinformatics 31 (6), 897-904, 2015
172015
Integrating tracer-based metabolomics data and metabolic fluxes in a linear fashion via elementary carbon modes
J Pey, A Rubio, C Theodoropoulos, M Cascante, FJ Planes
Metabolic engineering 14 (4), 344-353, 2012
142012
A network-based approach for predicting key enzymes explaining metabolite abundance alterations in a disease phenotype
J Pey, L Tobalina, JPJ De Cisneros, FJ Planes
BMC systems biology 7 (1), 62, 2013
132013
An optimization model for metabolic pathways
FJ Planes, JE Beasley
Bioinformatics 25 (20), 2723-2729, 2009
132009
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Articles 1–20