Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery

DOI PDF 1 Citations
  • Tamás Korcsmáros
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Illés J. Farkas
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Máté S. Szalay
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Petra Rovó
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Dávid Fazekas
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Zoltán Spiró
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Csaba Böde
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Katalin Lenti
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Tibor Vellai
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary
  • Péter Csermely
    1 Department of Genetics, Eötvös University, Pázmány P. s. 1C, H-1117 Budapest, 2Department of Medical Chemistry, Semmelweis University, PO Box 260, H-1444 Budapest, 3Statistical and Biological Physics Group of the Hungarian Academy of Sciences, Pázmány P. s. 1A, H-1117 Budapest, 4Morgan Stanley Hungary Analytics Ltd., Lechner Ö. f. 8, H-1095 Budapest and 5Department of Morphology and Physiology, Semmelweis University, Vas u. 17, H-1088 Budapest, Hungary

Abstract

<jats:title>Abstract</jats:title> <jats:p>Motivation: Signaling pathways control a large variety of cellular processes. However, currently, even within the same database signaling pathways are often curated at different levels of detail. This makes comparative and cross-talk analyses difficult.</jats:p> <jats:p>Results: We present SignaLink, a database containing eight major signaling pathways from Caenorhabditis elegans, Drosophila melanogaster and humans. Based on 170 review and ∼800 research articles, we have compiled pathways with semi-automatic searches and uniform, well-documented curation rules. We found that in humans any two of the eight pathways can cross-talk. We quantified the possible tissue- and cancer-specific activity of cross-talks and found pathway-specific expression profiles. In addition, we identified 327 proteins relevant for drug target discovery.</jats:p> <jats:p>Conclusions: We provide a novel resource for comparative and cross-talk analyses of signaling pathways. The identified multi-pathway and tissue-specific cross-talks contribute to the understanding of the signaling complexity in health and disease, and underscore its importance in network-based drug target selection.</jats:p> <jats:p>Availability:  http://SignaLink.org</jats:p> <jats:p>Contact:  csermely@eok.sote.hu</jats:p> <jats:p>Supplementary information:  Supplementary data are available at Bioinformatics online.</jats:p>

Journal

  • Bioinformatics

    Bioinformatics 26 (16), 2042-2050, 2010-06-11

    Oxford University Press (OUP)

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