Publications

Found 41 results
Author Title Type [ Year(Asc)]
2016
R. Huculeci, Cilia, E., Lyczek, A., Buts, L., Houben, K., Seeliger, M. A., van Nuland, N., and Lenaerts, T., Dynamically Coupled Residues within the SH2 Domain of FYN Are Key to Unlocking Its Activity, Structure, 2016.
R. Pancsa, Raimondi, D., Cilia, E., and Vranken, W. F., Early Folding Events, Local Interactions, and Conservation of Protein Backbone Rigidity, Biophysical Journal, vol. 110, pp. 572 - 583, 2016.
A. Zafra Ruano, Cilia, E., Couceiro, J. R., Sanz, J. Ruiz, Schymkowitz, J., Rousseau, F., Luque, I., and Lenaerts, T., From Binding-Induced Dynamic Effects in SH3 Structures to Evolutionary Conserved Sectors, PLoS Comput Biol, vol. 12, pp. 1-26, 2016.
F. Pucci, Bourgeas, R., and Rooman, M., High-quality thermodynamic data on the stability changes of proteins upon single-site mutations, bioRxiv, 2016.
F. Pucci and Rooman, M., Improved insights into protein thermal stability: from the molecular to the structurome scale, bioRxiv, 2016.
D. Raimondi, Orlando, G., Messens, J., and Vranken, W. F., Investigating The Molecular Mechanisms Behind Uncharacterized Cysteine Losses from Prediction of Their Oxidation State, Human Mutation, p. n/a–n/a, 2016.
D. Raimondi, Gazzo, A. M., Rooman, M., Lenaerts, T., and Vranken, W. F., Multi-level biological characterization of exomic variants at the protein level significantly improves the identification of their deleterious effects, Bioinformatics, 2016.
G. Orlando, Raimondi, D., and Vranken, W. F., Observation selection bias in contact prediction and its implications for structural bioinformatics, Scientific Reports, vol. 6, p. 36679 - , 2016.
O. Van Grembergen, Bizet, M., de Bony, E. J., Calonne, E., Putmans, P., Brohée, S., Olsen, C., Guo, M., Bontempi, G., Sotiriou, C., Defrance, M., and Fuks, F., Portraying breast cancers with long noncoding RNAs, Science Advances, vol. 2, 2016.
F. Pucci, Bourgeas, R., and Rooman, M., Predicting protein thermal stability changes upon point mutations using statistical potentials: Introducing HoTMuSiC, Scientific Reports, vol. 6, p. 23257 - , 2016.
R. Pancsa, Varadi, M., Tompa, P., and Vranken, W. F., Start2Fold: a database of hydrogen/deuterium exchange data on protein folding and stability, Nucleic Acids Research, vol. 44, pp. D429-D434, 2016.
2015
T. J. Ragan, Fogh, R. H., Tejero, R., Vranken, W., Montelione, G. T., Rosato, A., and Vuister, G. W., Analysis of the structural quality of the CASD-NMR 2013 entries, Journal of Biomolecular NMR, vol. 62, pp. 527–540, 2015.
M. Varadi, Vranken, W., Guharoy, M., and Tompa, P., Computational approaches for inferring the functions of intrinsically disordered proteins, Frontiers in Molecular Biosciences, vol. 2, p. 45, 2015.
K. Faust, Lima-Mendez, G., Lerat, J. - S., Sathirapongsasuti, J. Fah, Knight, R., Huttenhower, C., Lenaerts, T., and Raes, J., Cross-biome comparison of microbial association networks, Frontiers in Microbiology, vol. 6, 2015.
G. Lima-Mendez, Faust, K., Henry, N., Decelle, J., Colin, S., Carcillo, F., Chaffron, S., J. Ignacio-Espinosa, C., Roux, S., Vincent, F., Bittner, L., Darzi, Y., Wang, J., Audic, S., Berline, L., Bontempi, G., Cabello, A. M., Coppola, L., Cornejo-Castillo, F. M., d'Ovidio, F., De Meester, L., Ferrera, I., Garet-Delmas, M. - J., Guidi, L., Lara, E., Pesant, S., Royo-Llonch, M., Salazar, G., Sánchez, P., Sebastian, M., Souffreau, C., Dimier, C., Picheral, M., Searson, S., Kandels-Lewis, S., coordinators, T. Oceans, Gorsky, G., Not, F., Ogata, H., Speich, S., Stemmann, L., Weissenbach, J., Wincker, P., Acinas, S. G., Sunagawa, S., Bork, P., Sullivan, M. B., Karsenti, E., Bowler, C., de Vargas, C., and Raes, J., Determinants of community structure in the global plankton interactome, Science, vol. 348, 2015.
A. M. Gazzo, Daneels, D., Cilia, E., Bonduelle, M., Abramowicz, M., Van Dooren, S., Smits, G., and Lenaerts, T., DIDA: A curated and annotated digenic diseases database, Nucleic Acids Research, 2015.
D. Raimondi, Orlando, G., and Vranken, W. F., An Evolutionary View on Disulfide Bond Connectivities Prediction Using Phylogenetic Trees and a Simple Cysteine Mutation Model, Plos One, vol. 10, p. e0131792, 2015.
G. Bontempi and Flauder, M., From Dependency to Causality: A Machine Learning Approach, Journal of Machine Learning Research, vol. 16, pp. 2437-2457, 2015.
A. Colaprico, Cava, C., Bertoli, G., Bontempi, G., and Castiglioni, I., Integrative Analysis with Monte Carlo Cross-Validation Reveals miRNAs Regulating Pathways Cross-Talk in Aggressive Breast Cancer, vol. 2015, 2015.
P. Bellot, Olsen, C., Salembier, P., Oliveras-Verges, A., and Meyer, P., NetBenchmark: a bioconductor package for reproducible benchmarks of gene regulatory network inference, BMC Bioinformatics, vol. 16, p. 312, 2015.
A. Gutmanas, Adams, P. D., Bardiaux, B., Berman, H. M., Case, D. A., Fogh, R. H., Güntert, P., Hendrickx, P. M. S., Herrmann, T., Kleywegt, G. J., Kobayashi, N., Lange, O. F., Markley, J. L., Montelione, G. T., Nilges, M., Ragan, T. J., Schwieters, C. D., Tejero, R., Ulrich, E. L., Velankar, S., Vranken, W. F., Wedell, J. R., Westbrook, J., Wishart, D. S., and Vuister, G. W., NMR Exchange Format: a unified and open standard for representation of NMR restraint data., Nature Structural & Molecular Biology, vol. 22, pp. 433–434, 2015.

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