• Generation and evaluation of a genome-scale metabolic network model of synechococcus elongatus PCC7942 

      Triana Dopico, Julián; Montagud Aquino, Arnau; Siurana Paula, Maria; Fuente Herráiz, David; Urchueguía Fornes, Arantxa; Gamermann, Daniel; Torres Gavila, Francisco Javier; Tena Medialdea, José; Fernández de Córdoba Castellá, Pedro José; Urchueguía Schölzel, Javier Fermín (2014) [Artigo de periódico]
      The reconstruction of genome-scale metabolic models and their applications represent a great advantage of systems biology. Through their use as metabolic flux simulation models, production of industrially-interesting ...
    • Large scale evaluation of differences between network-based and pairwise sequence-alignment-based methods of dendrogram reconstruction 

      Gamermann, Daniel; Montagud Aquino, Arnau; Conejero, J. Alberto; Fernández de Córdoba, Pedro‏; Urchueguía Schölzel, Javier Fermín (2019) [Artigo de periódico]
      Dendrograms are a way to represent relationships between organisms. Nowadays, these are inferred based on the comparison of genes or protein sequences by taking into account their differences and similarities. The genetic ...
    • New approach for phylogenetic tree recovery based on genome-scale metabolic networkss 

      Gamermann, Daniel; Montagud Aquino, Arnau; Conejero Casares, Alberto; Urchueguía Schölzel, Javier Fermín; Fernández de Córdoba Castellá, Pedro José (2014) [Artigo de periódico]
      A wide range of applications and research has been done with genome-scale metabolic models. In this work, we describe an innovative methodology for comparing metabolic networks constructed from genome-scale metabolic models ...
    • PyNetMet : python tools for efficient work with networks and metabolic models 

      Gamermann, Daniel; Montagud Aquino, Arnau; Infante, Ramon Jaime; Triana, Julian; Urchueguía Schölzel, Javier Fermín; Fernández de Córdoba Castellá, Pedro José (2014) [Artigo de periódico]
      The complexity of genome-scale metabolic models and networks associated to biological systems makes the use of computational tools an essential element in the field of systems biology. Here we present PyNetMet, a Python ...