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SignaLink specifications

Information


Unique identifier OMICS_29034
Name SignaLink
Restrictions to use Academic or non-commercial use
Database management system MySQL
Community driven No
Data access Browse
User data submission Not allowed
Version 2.0
Maintained Yes

Maintainer


  • person_outline Tamas Korcsmaros

Publications for SignaLink

SignaLink citations

 (5)
library_books

Logic Modeling in Quantitative Systems Pharmacology

2017
PMCID: 5572374
PMID: 28681552
DOI: 10.1002/psp4.12225

[…] abase information. There exist some pathway databases that depict, in great detail, the literature curated signaling pathways. Among these databases, KEGG, Reactome,, BioCarta, Wikipathways, Signor, Signalink, ACSN, etc., can be cited. Retrieving information from them is faster than the tedious process of reviewing the literature. However, the modeler should keep in mind the limits of such resour […]

library_books

A 22q11.2 amplification in the region encoding microRNA 650 correlates with the epithelial to mesenchymal transition in breast cancer primary cultures of Mexican patients

2017
PMCID: 5238778
PMID: 28101578
DOI: 10.3892/ijo.2017.3842

[…] nker® (http://pathwaylinker.org) was used to determine protein-protein interaction networks; this platform uses three different databases: KEGG (Kyoto Encyclopedia of Genes and Genomes), Reactome and SignaLink database. […]

library_books

Comparison of human cell signaling pathway databases—evolution, drawbacks and challenges

2015
PMCID: 4309023
PMID: 25632107
DOI: 10.1093/database/bau126

[…] E only provides the reactions schema but not the kinetic parameters for quantitative model development (). Similarly, there are other similar databases like KEGG, NCI-PID, CPDB, NetPath, hiPathDB (), SignaLink, SPIKE (), WikiPathways and PANTHER, which also provide the reaction graphs (not quantitative) in various computer readable file formats (e.g. KGML, SBML, SBGN and BioPAX) and by importing t […]

library_books

Navigating the Multilayered Organization of Eukaryotic Signaling: A New Trend in Data Integration

2014
PLoS Comput Biol
PMCID: 3923657
PMID: 24550716
DOI: 10.1371/journal.pcbi.1003385

[…] Recently developed databases, such as ConsensusPathDB , TranscriptomeBrowser , InteractomeBrowser , , and SignaLink2 , aim to link signaling pathways to downstream transcriptional regulations by systematically integrating protein-DNA interactions with PPI, PTM, and enzymatic reactions. One of the first su […]

library_books

Signalogs: Orthology Based Identification of Novel Signaling Pathway Components in Three Metazoans

2011
PLoS One
PMCID: 3086880
PMID: 21559328
DOI: 10.1371/journal.pone.0019240

[…] Each cluster contains proteins with related sequences from the two species, and each protein has an Inparalog score (for the calculation of this score, see ).Previously, during the compilation of the SignaLink database, InParanoid data (version 6.1) were applied to find known signaling proteins by orthology searches , . Based on SignaLink, now we can link a protein with a previously unknown signal […]

Citations

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SignaLink institution(s)
Department of Genetics, Eötvös Loránd University, Budapest, Hungary; Statistical and Biological Physics Group of the Hungarian Acad. of Sciences, Budapest, Hungary; Department of Biological Physics, Eötvös Loránd University, Budapest, Hungary; Department of Medical Chemistry, Semmelweis University, Budapest, Hungary; Department of Morphology and Physiology, Semmelweis University, Budapest, Hungary
SignaLink funding source(s)
Supported by the European Union and the European Social Fund [TAMOP4.2.2/B-10/1-2010-0013 and TAMOP-4.2.1/B-09/1/KMR-2010-0003], the Hungarian Scientific Research Fund [OTKA K83314, K75334, NK78012], and János Bolyai Scholarships.

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