NAR Molecular Biology Database Collection entry number 1857
Cesareni, Gianni; Perfetto, Livia; Briganti, Leonardo; Calderone, Alberto; Cerquone Perpetuini, Andrea; Iannuccelli, Marta; Langone, Francesca; Licata, Luana; Marinkovic, Milica; Mattioni, Anna; Pavlidou, Theodora; Peluso, Daniele; Petrilli, Lucia; Pirrò, Stefano; Posca, Daniela; Santonico, Elena; Silvestri, Alessandra; Spada, Filomena; Castagnoli, Luisa
Department of Biology University of Rome Tor Vergata, via della ricerca scientifica snc, 00133 Rome Italy.
SIGNOR, the SIGnaling Network Open Resource is a new database designed to facilitate the storage and analysis of causal interactions, i.e. interactions where a source entity has an effect (up-regulation, down-regulation, etc.) on a target entity. An on-going curation effort in our group aims at making SIGNOR a prominent resource in the biological community by offering a comprehensive network of experimentally validated functional relationships between signalling proteins. At the time of writing, the core of SIGNOR is a collection of approximately 12000 manually-annotated causal relationships between proteins and other biological entities that participate in signal transduction. Each relationship is linked to the literature reporting the experimental evidence and it is assigned a score. More than 4,900 modified residues causing a change in protein concentration or activity have been curated and linked to the modifying enzymes (about 351 human kinases and 94 phosphatases). Additional modifications such as ubiquitinations, sumoylations, acetylations and their effect on the modified target proteins are also annotated. This wealth of structured information can support experimental approaches based on multi-parametric analysis of cell systems after physiological or pathological perturbations and to assemble large logic models.
We would like to thank Doron Lancet for useful discussions and for providing the gene co-citation table that was used to develop the reliability score. This work was supported by the European Research Council grant N°322749 DEPTH to GC and by a grant from Italian Association for Cancer Research (AIRC) to GC.
Category: Metabolic and Signaling Pathways
Subcategory: Signalling pathways
Go to the article in the NAR Database issue.
Oxford University Press is not responsible for the content of external internet sites