Exploring metabolic pathways in genome-scale networks via generating flux modes. - Alberto Rezola; Luis F. de Figueiredo; Matthias Brock; Jon Pey; Adam Podhorski; Christoph Wittmann; Stefan Schuster; Alexander Bockmayr; Francisco J. Planes (Bioinform., 2011)

Do elementary flux modes combine linearly at the "atomic" level? Integrating tracer-based metabolomics data and elementary flux modes. - Jon Pey; Constantinos Theodoropoulos; Alberto Rezola; Angel Rubio; Marta Cascante; Francisco J. Planes (Biosyst., 2011)

Joint analysis of miRNA and mRNA expression data. - Ander Muniategui; Jon Pey; Francisco J. Planes; Angel Rubio (Briefings Bioinform., 2013)

Selection of human tissue-specific elementary flux modes using gene expression data. - Alberto Rezola; Jon Pey; Luis F. de Figueiredo; Adam Podhorski; Stefan Schuster; Angel Rubio; Francisco J. Planes (Bioinform., 2013)

A network-based approach for predicting key enzymes explaining metabolite abundance alterations in a disease phenotype. - Jon Pey; Luis Tobalina; Joaquín Prada J. de Cisneros; Francisco J. Planes (BMC Syst. Biol., 2013)

Integrating gene and protein expression data with genome-scale metabolic networks to infer functional pathways. - Jon Pey; Kaspar Valgepea; Angel Rubio; John E. Beasley; Francisco J. Planes (BMC Syst. Biol., 2013)

Direct calculation of elementary flux modes satisfying several biological constraints in genome-scale metabolic networks. - Jon Pey; Francisco J. Planes (Bioinform., 2014)

Refining carbon flux paths using atomic trace data. - Jon Pey; Francisco J. Planes; John E. Beasley (Bioinform., 2014)

Advances in network-based metabolic pathway analysis and gene expression data integration. - Alberto Rezola; Jon Pey; Luis Tobalina; Ángel Rubio; John E. Beasley; Francisco J. Planes (Briefings Bioinform., 2015)

TreeEFM: calculating elementary flux modes using linear optimization in a tree-based algorithm. - Jon Pey; Juan A. Villar; Luis Tobalina; Alberto Rezola; José Manuel García Carrasco; John E. Beasley; Francisco J. Planes (Bioinform., 2015)

Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data. - Luis Tobalina; Rafael Bargiela; Jon Pey; Florian-Alexander Herbst; Iván Lores; David Rojo; Coral Barbas; Ana I. Peláez; Jesús Sánchez; Martin von Bergen; Jana Seifert; Manuel Ferrer; et al. (Bioinform., 2015)

Direct calculation of minimal cut sets involving a specific reaction knock-out. - Luis Tobalina; Jon Pey; Francisco J. Planes (Bioinform., 2016)

ELIMINATOR: essentiality analysis using multisystem networks and integer programming. - Asier Antoranz; María Ortiz; Jon Pey (BMC Bioinform., 2022)