SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks.

Autor:	Csabai L; Earlham Institute, Norwich NR4 7UZ, UK.; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Fazekas D; Earlham Institute, Norwich NR4 7UZ, UK.; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Kadlecsik T; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Szalay-Bekő M; Earlham Institute, Norwich NR4 7UZ, UK., Bohár B; Earlham Institute, Norwich NR4 7UZ, UK.; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Madgwick M; Earlham Institute, Norwich NR4 7UZ, UK.; Gut Microbes and Health Programme, Quadram Institute Bioscience, Norwich, NR4 7UQ, UK., Módos D; Earlham Institute, Norwich NR4 7UZ, UK.; Gut Microbes and Health Programme, Quadram Institute Bioscience, Norwich, NR4 7UQ, UK., Ölbei M; Earlham Institute, Norwich NR4 7UZ, UK.; Gut Microbes and Health Programme, Quadram Institute Bioscience, Norwich, NR4 7UQ, UK., Gul L; Earlham Institute, Norwich NR4 7UZ, UK., Sudhakar P; Earlham Institute, Norwich NR4 7UZ, UK.; Translational Research in GastroIntestinal Disorders, Leuven BE-3000, Belgium., Kubisch J; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Oyeyemi OJ; Zeekay Institute of Advanced and Professional Studies, Lagos, Nigeria., Liska O; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; HCEMM-BRC Metabolic Systems Biology Lab, Szeged H-6726, Hungary.; Synthetic and Systems Biology Unit, Institute of Biochemistry, Biological Research Centre, Eötvös Loránd Research Network (ELKH), Szeged H-6726, Hungary.; Doctoral School in Biology, University of Szeged, Szeged H-6720 Hungary., Ari E; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; HCEMM-BRC Metabolic Systems Biology Lab, Szeged H-6726, Hungary.; Synthetic and Systems Biology Unit, Institute of Biochemistry, Biological Research Centre, Eötvös Loránd Research Network (ELKH), Szeged H-6726, Hungary., Hotzi B; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Billes VA; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; ELKH/MTA-ELTE Genetics Research Group, Budapest H-1117, Hungary., Molnár E; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Földvári-Nagy L; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; Department of Morphology and Physiology, Semmelweis University, Budapest H-1088, Hungary., Csályi K; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Demeter A; Earlham Institute, Norwich NR4 7UZ, UK.; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Pápai N; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; Institute of Molecular Biotechnology, Vienna A-1030, Austria., Koltai M; Centre for the Mathematical Modelling of Infectious Diseases (CMMID), London School of Hygiene & Tropical Medicine, London WC1E 7HT, UK., Varga M; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary., Lenti K; Department of Morphology and Physiology, Semmelweis University, Budapest H-1088, Hungary., Farkas IJ; Citibank Europe plc Hungarian Branch Office, Budapest H-1133, Hungary., Türei D; Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Bioquant, Heidelberg, Germany., Csermely P; Department of Molecular Biology, Semmelweis University, Budapest H-1094, Hungary., Vellai T; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; ELKH/MTA-ELTE Genetics Research Group, Budapest H-1117, Hungary., Korcsmáros T; Earlham Institute, Norwich NR4 7UZ, UK.; Department of Genetics, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.; Gut Microbes and Health Programme, Quadram Institute Bioscience, Norwich, NR4 7UQ, UK.
Jazyk:	angličtina
Zdroj:	Nucleic acids research [Nucleic Acids Res] 2022 Jan 07; Vol. 50 (D1), pp. D701-D709.
DOI:	10.1093/nar/gkab909
Abstrakt:	Signaling networks represent the molecular mechanisms controlling a cell's response to various internal or external stimuli. Most currently available signaling databases contain only a part of the complex network of intertwining pathways, leaving out key interactions or processes. Hence, we have developed SignaLink3 (http://signalink.org/), a value-added knowledge-base that provides manually curated data on signaling pathways and integrated data from several types of databases (interaction, regulation, localisation, disease, etc.) for humans, and three major animal model organisms. SignaLink3 contains over 400 000 newly added human protein-protein interactions resulting in a total of 700 000 interactions for Homo sapiens, making it one of the largest integrated signaling network resources. Next to H. sapiens, SignaLink3 is the only current signaling network resource to provide regulatory information for the model species Caenorhabditis elegans and Danio rerio, and the largest resource for Drosophila melanogaster. Compared to previous versions, we have integrated gene expression data as well as subcellular localization of the interactors, therefore uniquely allowing tissue-, or compartment-specific pathway interaction analysis to create more accurate models. Data is freely available for download in widely used formats, including CSV, PSI-MI TAB or SQL. (© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.)
Databáze:	MEDLINE
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