Publications

Found 49 results
Filters: Keyword is Computational Biology  [Clear All Filters]
2010
Turner, B., S. Razick, A. L. Turinsky, J. Vlasblom, E. K. Crowdy, E. Cho, K. Morrison, I. M. Donaldson, and S. J. Wodak, "iRefWeb: interactive analysis of consolidated protein interaction data and their supporting evidence.", Database (Oxford), vol. 2010, pp. baq023, 2010.
Fogh, R. H., W. Boucher, J. M. C. Ionides, W. F. Vranken, T. J. Stevens, and E. D. Laue, "MEMOPS: data modelling and automatic code generation.", J Integr Bioinform, vol. 7, issue 3, 2010.
Velankar, S., C. Best, B. Beuth, C. H. Boutselakis, N. Cobley, A. W. Sousa Da Silva, D. Dimitropoulos, A. Golovin, M. Hirshberg, M. John, et al., "PDBe: Protein Data Bank in Europe.", Nucleic Acids Res, vol. 38, issue Database issue, pp. D308-17, 2010 Jan.
Guharoy, M., J. Janin, and C. H. Robert, "Side-chain rotamer transitions at protein-protein interfaces.", Proteins, vol. 78, issue 15, pp. 3219-25, 2010 Nov 15.
2009
Guharoy, M., and P. Chakrabarti, "Empirical estimation of the energetic contribution of individual interface residues in structures of protein-protein complexes.", J Comput Aided Mol Des, vol. 23, issue 9, pp. 645-54, 2009 Sep.
Hegyi, H., L. Buday, and P. Tompa, "Intrinsic structural disorder confers cellular viability on oncogenic fusion proteins.", PLoS Comput Biol, vol. 5, issue 10, pp. e1000552, 2009 Oct.
Hazy, E., and P. Tompa, "Limitations of induced folding in molecular recognition by intrinsically disordered proteins.", Chemphyschem, vol. 10, issue 9-10, pp. 1415-9, 2009 Jul 13.
Vlasblom, J., and S. J. Wodak, "Markov clustering versus affinity propagation for the partitioning of protein interaction graphs.", BMC Bioinformatics, vol. 10, pp. 99, 2009.
2008
Szollosi, E., M. Bokor, A. Bodor, A. Perczel, E. Klement, K. F. Medzihradszky, K. Tompa, and P. Tompa, "Intrinsic structural disorder of DF31, a Drosophila protein of chromatin decondensation and remodeling activities.", J Proteome Res, vol. 7, issue 6, pp. 2291-9, 2008 Jun.
Pu, S., K. Ronen, J. Vlasblom, J. Greenblatt, and S. J. Wodak, "Local coherence in genetic interaction patterns reveals prevalent functional versatility.", Bioinformatics, vol. 24, issue 20, pp. 2376-83, 2008 Oct 15.
Dosztányi, Z., and P. Tompa, "Prediction of protein disorder.", Methods Mol Biol, vol. 426, pp. 103-15, 2008.
2007
Lensink, M. F., R. Méndez, and S. J. Wodak, "Docking and scoring protein complexes: CAPRI 3rd Edition.", Proteins, vol. 69, issue 4, pp. 704-18, 2007 Dec 1.
Wodak, S. J., "From the Mediterranean coast to the shores of Lake Ontario: CAPRI's premiere on the American continent.", Proteins, vol. 69, issue 4, pp. 697-8, 2007 Dec 1.
2006
Croes, D., F. Couche, S. J. Wodak, and J. van Helden, "Inferring meaningful pathways in weighted metabolic networks.", J Mol Biol, vol. 356, issue 1, pp. 222-36, 2006 Feb 10.
2005
Méndez, R., R. Leplae, M. F. Lensink, and S. J. Wodak, "Assessment of CAPRI predictions in rounds 3-5 shows progress in docking procedures.", Proteins, vol. 60, issue 2, pp. 150-69, 2005 Aug 1.
Mignon, P., S. Loverix, J. Steyaert, and P. Geerlings, "Influence of the pi-pi interaction on the hydrogen bonding capacity of stacked DNA/RNA bases.", Nucleic Acids Res, vol. 33, issue 6, pp. 1779-89, 2005.
2004
Leplae, R., A. Hebrant, S. J. Wodak, and A. Toussaint, "ACLAME: a CLAssification of Mobile genetic Elements.", Nucleic Acids Res, vol. 32, issue Database issue, pp. D45-9, 2004 Jan 1.
Lemer, C., E. Antezana, F. Couche, F. Fays, X. Santolaria, R's. Janky, Y. Deville, J. Richelle, and S. J. Wodak, "The aMAZE LightBench: a web interface to a relational database of cellular processes.", Nucleic Acids Res, vol. 32, issue Database issue, pp. D443-8, 2004 Jan 1.
Simonis, N., J. van Helden, G. N. Cohen, and S. J. Wodak, "Transcriptional regulation of protein complexes in yeast.", Genome Biol, vol. 5, issue 5, pp. R33, 2004.
2003
Mucsi, Z., F. Hudecz, M. Hollósi, P. Tompa, and P. Friedrich, "Binding-induced folding transitions in calpastatin subdomains A and C.", Protein Sci, vol. 12, issue 10, pp. 2327-36, 2003 Oct.
Wernisch, L., and S. J. Wodak, "Identifying structural domains in proteins.", Methods Biochem Anal, vol. 44, pp. 365-85, 2003.
Deville, Y., D. Gilbert, J. van Helden, and S. J. Wodak, "An overview of data models for the analysis of biochemical pathways.", Brief Bioinform, vol. 4, issue 3, pp. 246-59, 2003 Sep.
2002
van Helden, J., L. Wernisch, D. Gilbert, and S. J. Wodak, "Graph-based analysis of metabolic networks.", Ernst Schering Res Found Workshop, issue 38, pp. 245-74, 2002.
2001
van Helden, J., A. Naim, C. Lemer, R. Mancuso, M. Eldridge, and S. J. Wodak, "From molecular activities and processes to biological function.", Brief Bioinform, vol. 2, issue 1, pp. 81-93, 2001 Mar.

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