ResearchMy research is about i) evolutionary systems biology to study how organisms adapt to changing environments by using mechanistic models of the cell and genome evolution approaches, and ii) systems-level understanding of genetic disorders, such as cancer, with the aim to design therapeutic interventions.
|
 |
Education and Positions 2009 - Assistent professor at the Centre for Molecular and Biomolecular Informatics (CMBI) and Centre for Systems Biology and Bioenergetics (CSBB), Radboud University Nijmegen, The Netherlands. |
Grants 2010 - NWO/ZonMW - Centre for Systems Biology Research (as member of CSBB) |
 |
PublicationsLu X, Kensche P.R., Huynen M.A., Notebaart R.A. (2013), Genome evolution predicts genetic interactions in protein complexes and reveals cancer drug targets, Nature Commun. in press Rossell S., Huynen M.A., Notebaart R.A. (2013), Inferring metabolic states in uncharacterized environments using gene-expression measurements, PLoS Comput. Biol. 9(3): e1002988, Pubmed, PDF Papp B., Notebaart R.A., Pal C. (2011), Systems-biology approaches for predicting genomic evolution, Nature Rev. Genet., 12(9):591-602, Pubmed, PDF Papp B., Szappanos B., Notebaart R.A. (2011), Use of genome-scale metabolic models in evolutionary systems biology, Methods Mol. Biol., 759:483-97, Pubmed, PDF Notebaart R.A., Kensche P.R., Huynen M.A., Dutilh B.E. (2009), Asymmetric relationships between proteins shape genome evolution, Genome Biol, 10:R19, Pubmed, PDF Papp B., Teusink B., Notebaart R.A. (2009), A critical view of metabolic network adaptations, HFSP J., 3(1), 24-35 Pubmed, PDF Teusink B., Wiersma A., Jacobs L., Notebaart R.A., Smid E.J. (2009), Understanding the adaptive growth strategy of L. plantarum on glycerol by in silico optimisation, PLoS Comput. Biol., Pubmed, PDF Verouden M.P.H.,Notebaart R.A., Westerhuis J.A., van der Werf M.J., Teusink B., Smilde A.K. (2009), Multi-way analysis of flux distributions across multiple conditions, J. Chemometrics, DOI: 10.1002/cem.1238, PDF Notebaart R.A., Teusink B., Siezen R.J., Papp B. (2008), Co-regulation of metabolic genes is better explained by flux coupling than by network distance, PLoS Comput. Biol., 4, e26, Pubmed, PDF Wessels E., Notebaart R.A., Duijsings D., Lanke K., Vergeer B., Melchers W.J., van Kuppeveld F.J. (2006), Structure-function analysis of the coxsackievirus protein 3A: Identification of residues important for dimerization, viral RNA replication, and transport inhibition, J. Biol. Chem. 281, 28232-28243. Pubmed, PDF Notebaart R.A., van Enckevort F.J.H., Francke C., Siezen R.J., Teusink B. (2006), Accelerating the reconstruction of genome-scale metabolic networks, BMC Bioinformatics, 7, 296. Pubmed, PDF Notebaart R.A., Huynen M.A., Teusink B., Siezen R.J., Snel B. (2005), Correlation between sequence conservation and the genomic context after gene duplication, Nucleic Acids Res. 33, 6164-6171. Pubmed, PDF Wessels E., Duijsings D., Notebaart R.A., Melchers W.J.G., van Kuppeveld F.J.M. (2005), A Proline-Rich Region in the Coxsackievirus 3A Protein Is Required for the Protein To Inhibit Endoplasmic Reticulum-to-Golgi Transport, J. Virol. 79, 5163-5173. Pubmed, PDF |
Collaborators Balázs Papp: Biological Research Centre (BRC), Szeged, Hungary and Cambridge Systems Biology Centre, University of Cambridge, UK |
Open positionsWe support applications of motivated PhD students and Post-docs who want to work in evolutionary systems biology within our new CSBB (Centre for Systems Biology and Bioenergetics). A strong background in bioinformatics / computer science / cell biology (biochemistry) is needed. Please send me your CV, list of publications and two reference letters. |