Publications of the Systems Biology group

• 2013 Rossell S, Huynen MA, Notebaart RA.
  Inferring metabolic States in uncharacterized environments using gene-expression measurements.
  PLoS Comput Biol, Mar;9(3):e1002988. doi: 10.1371/journal.pcbi.1002988. Details


• 2012 Balsa E, Marco R, Perales-Clemente E, Szklarczyk R, Calvo E, Landázuri MO, Enríquez JA.
  NDUFA4 Is a Subunit of Complex IV of the Mammalian Electron Transport Chain.
  Cell Metab, Sep 5;16(3):378-386. Details


• 2012 Dessimoz C, Gabaldón T, Roos DS, Sonnhammer EL, Herrero J; Quest for Orthologs Consortium.
  Toward community standards in the quest for orthologs.
  Bioinformatics, Mar 15;28(6):900-904. Details


• 2011 Papp B, Notebaart RA, Pál C.
  Systems-biology approaches for predicting genomic evolution.
  Nat Rev Genet, Aug 2;12(9):591-602. Details


• 2011 Papp B, Szappanos B, Notebaart RA.
  Use of genome-scale metabolic models in evolutionary systems biology.
  Methods Mol Biol, 759(3):483-497. Details


• 2011 Rossell S, Solem C, Jensen PR, Heijnen JJ.
  Towards a quantitative prediction of the fluxome from the proteome.
  Metab Eng, May;13(3):253-262. Details


• 2011 van Eunen K, Rossell S, Bouwman J, Westerhoff HV, Bakker BM.
  Quantitative analysis of flux regulation through hierarchical regulation analysis.
  Methods Enzymol, 500:571-595. Details


• 2009 Papp B, Teusink B, Notebaart RA.
  A critical view of metabolic network adaptations.
  HFSP J, Feb;3(1):24-35. Details


• 2009 Verouden MPH, Notebaart RA, Westerhuis JA, van der Werf MJ, Teusink B, Smilde AK.
  Multi-way analysis of flux distributions across multiple conditions.
  J. Chemometrics, 23(7-8):406-420. Details


• 2009 Teusink B, Wiersma A, Jacobs L, Notebaart RA, Smid EJ.
  Understanding the adaptive growth strategy of Lactobacillus plantarum by in silico optimisation.
  PLoS Comput Biol, Jun;5(6):e1000410. Details


• 2009 Notebaart RA, Kensche PR, Huynen MA, Dutilh BE.
  Asymmetric relationships between proteins shape genome evolution.
  Genome Biol, Feb 12;10(2):R19. Details


• 2008 Notebaart RA, Teusink B, Siezen RJ, Papp B.
  Co-regulation of metabolic genes is better explained by flux coupling than by network distance.
  PLoS Comput Biol, 4(1):e26 Details