Signalling networks

Desription:

The SignaLinK group is working with signalling networks in collaboration with Péter Csermely (Semmelweis University, LINK-group), Tibor Vellai (Eötvös University, Dept. of Genetics), Tamás Vicsek and Bálint Szabó (Eötvös University, Dept. of Biological Physics). Our aim is to experimentally prove our hypothesis on embed adaptation of network topology in C. elegans.

Due to the methodological advances in the past 5 to 6 years, our knowledge about the constituents of the cell and their links increased faster than the conceptualization of the underlying pathways and emergent properties. This is the reason why we do not have up-to-date signaling networks, which are neither subjective nor historically based. The geneticists and biochemists as well as system biologists have been working in this field for a long time but their approaches and aims are diverse. System biologists start with a huge amount of experimental data (mostly coming from high-throughput experiments) and examine their structure and tacit information structure. Geneticists and biochemists mostly select their research topics based on local traditions or current trends. These approaches often result in local and fragmented knowledge. Therefore, we currently have more than a dozen systems for signaling networks and classifications of signal transduction pathways. The traditional concept is the establishment of separate pathways and their cross-talk with each other. The scientific community becomes increasingly aware that this classification is rather biased and subjective. If we want to carry out experiments based on network properties, we need to have an objective, multiply checked network. Therefore we deceided to build a universal signaling network and will perform physiological experiments based on the network analysis.

If you have any questions regarding the above mentioned project or about our results, please write to: korcsmaros [at] gmail.com

A collection of useful and important biological sites in network science

The list of publications:

1. Modos, D., Brooks, J., Fazekas, D., Ari, E., Vellai, T., Csermely, P., Korcsmáros, T. and Lenti, K. (2016) Identification of critical paralog groups with indispensable roles in the regulation of signaling flow. Sci. Rep. 6, 38588, IF: 5.2 Download it!
2. Csályi, K., Fazekas, D., Kadlecsik, T., Türei, D., Gul, L., Horváth, B., Dezső Módos, D., Demeter, A., Pápai, N., Lenti, K., Csermely, P., Vellai, T., Korcsmáros, T. and Varga, M. (2016) SignaFish: a zebrafish-specific signaling pathway resource. Zebrafish, 13, 541-544, IF: 2.0 Download it!
3. Türei, D., Földvári-Nagy, L., Fazekas, D., Módos, D., Kubisch, J., Kadlecsik, T., Demeter, A., Lenti, K., Csermely, P., Vellai, T. and Korcsmáros, T. (2015) Autophagy Regulatory Network – a systems-level bioinformatics resource for studying autophagy components and their regulation. Autophagy 11, 155-165, IF: 12.0 Download it!
4. Csermely, P., Hódsági, J., Korcsmáros, T., Módos, D., Perez-Lopez, A.R., Szalay, K., Veres, D.V., Lenti, K., Wu, L.Y. and Zhang, X.S. (2015) Cancer stem cells display extremely large evolvability: alternating plastic and rigid networks as a potential mechanism. Network models, novel therapeutic target strategies and the contributions of hypoxia, inflammation and cellular senescence. Seminars in Cancer Biology, 30, 42-51. IF: 9.1 .http://arxiv.org/abs/1312.6356
   Download it!
5. Fazekas, D. Koltai, M., Türei, D., Módos, D., Pálfy, M., Dúl, Z., Zsákai, L., Szalay-Bekő, M., Lenti, K., Farkas, I.J., Vellai, T., Csermely, P. and Korcsmáros, T. (2013) SignaLink 2 – A signaling pathway resource with multi-layered regulatory networks. BMC Systems Biology 7, 7. IF: 3.1 Download it!
   • A Highly Accessed paper
   • Featured in the March 2013 issue of Science Signaling: http://stke.sciencemag.org/cgi/ul/sigtransUl;CAT_2?#sigtransUl;WP_646
6. Diána Papp, Katalin Lenti, Dezső Módos, Dávid Fazekas, Zoltán Dúl, Dénes Türei, László Földvári-Nagy, Ruth Nussinov, Péter Csermely, Tamás Korcsmáros (2012) The NRF2-related interactome and regulome contain multifunctional proteins and fine-tuned autoregulatory loops. FEBS Letters 586, 1795-1802, IF: 3.6 Download it!
7. Korcsmáros, T. Szalay, M.S., Rovó, P., Palotai, R., Fazekas, D., Lenti, K., Farkas, I.J. Csermely, P. and Vellai, T. (2011) Signalogs: orthology-based identification of novel signaling pathway components in three metazoans. PLoS ONE 8, e19240, IF: 4,4 Download it!
8. Csermely, P., Korcsmáros, T., Kovács, I.A., Szalay M.S. and Sőti, C. (2008) Systems biology of molecular chaperone networks. In: The biology of extracellular molecular chaperones. Novartis Foundation Symposium Series Vol. 291, Wiley, pp. 45-58. Download it!
9. Korcsmaros, T., Kovacs, I. A., Szalay, M. S. and Csermely, P (2006) Molecular chaperones: The modular evolution of cellular networks. Journal of Bioscience 32 (3): 441-446. IF: 1,5 Download it!
10. Szalay, M., Kovács, I.A., Korcsmáros, T., Böde. C. and Csermely, P. (2007) Stress-induced rearrangements of cellular networks: consequences for protection and drug design. FEBS Lett. 581, 3675-3680, Download it!
    Visit it at arXiv.org! IF: 3.5
11. Korcsmáros, T., Szalay, M., Böde. C., Kovács, I.A., and Csermely, P. (2007) How to design multi-target drugs: Target-search options in cellular networks. Exp. Op. Drug Discovery 2: 1-10. Download it!