Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The . gov means it’s official. Federal government websites often end in VSports app下载. gov or . mil. Before sharing sensitive information, make sure you’re on a federal government site. .

Https

The site is secure. The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely. V体育官网.

. 2017 Jan 4;45(D1):D362-D368.
doi: 10.1093/nar/gkw937. Epub 2016 Oct 18.

VSports - The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible

Damian Szklarczyk  1 , John H Morris  2 , Helen Cook  3 , Michael Kuhn  4 , Stefan Wyder  1 , Milan Simonovic  1 , Alberto Santos  3 , Nadezhda T Doncheva  3 , Alexander Roth  1 , Peer Bork  5   6   7   8 , Lars J Jensen  9 , Christian von Mering  10
Affiliations

The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible

Damian Szklarczyk et al. Nucleic Acids Res. .

"V体育平台登录" Abstract

A system-wide understanding of cellular function requires knowledge of all functional interactions between the expressed proteins. The STRING database aims to collect and integrate this information, by consolidating known and predicted protein-protein association data for a large number of organisms. The associations in STRING include direct (physical) interactions, as well as indirect (functional) interactions, as long as both are specific and biologically meaningful. Apart from collecting and reassessing available experimental data on protein-protein interactions, and importing known pathways and protein complexes from curated databases, interaction predictions are derived from the following sources: (i) systematic co-expression analysis, (ii) detection of shared selective signals across genomes, (iii) automated text-mining of the scientific literature and (iv) computational transfer of interaction knowledge between organisms based on gene orthology VSports手机版. In the latest version 10. 5 of STRING, the biggest changes are concerned with data dissemination: the web frontend has been completely redesigned to reduce dependency on outdated browser technologies, and the database can now also be queried from inside the popular Cytoscape software framework. Further improvements include automated background analysis of user inputs for functional enrichments, and streamlined download options. The STRING resource is available online, at http://string-db. org/. .

PubMed Disclaimer

VSports - Figures

Figure 1.
Figure 1.
Network and Enrichment Analysis. Combined screenshots from the STRING website, showing results obtained upon entering a set of 31 proteins suspected to be involved in Amyotrophic Lateral Sclerosis (55). The insets are showing (from top to bottom): the accessory information available for a single protein, a reported enrichment of functional connections among the set of proteins, and statistical enrichments detected in functional subsystems. In the bottom inset, one enriched function has been selected, and the corresponding protein nodes in the network are automatically highlighted in color.
Figure 2.
Figure 2.
STRING network visualization within Cytoscape. Using the Cytoscape STRING app, a network was retrieved for 78 proteins interacting with TrkA (tropomyosin-related kinase A) 10 min after stimulating neuroblastoma cells with NGF (nerve growth factor) (56). With a confidence cutoff of 0.4, the resulting network contains 182 functional associations between 57 of the proteins; the 21 proteins with no associations to other proteins in the network were removed. Nodes are colored according to the protein abundance (log ratio) compared to the cells before NGF treatment. The confidence score of each interaction is mapped to the edge thickness and opacity.
See this image and copyright information in PMC

References

    1. Aloy P., Russell R.B. Ten thousand interactions for the molecular biologist. Nat. Biotechnol. 2004;22:1317–1321. - PubMed
    1. Gao M., Skolnick J. Structural space of protein-protein interfaces is degenerate, close to complete, and highly connected. Proc. Natl. Acad. Sci. U.S.A. 2010;107:22517–22522. - PMC - PubMed
    1. Garma L., Mukherjee S., Mitra P., Zhang Y. How many protein-protein interactions types exist in nature? PLoS One. 2012;7:e38913. - VSports最新版本 - PMC - PubMed
    1. Enright A.J., Ouzounis C.A. Functional associations of proteins in entire genomes by means of exhaustive detection of gene fusions. Genome Biol. 2001;2 RESEARCH0034. - PMC - PubMed
    1. Snel B., Bork P., Huynen M.A. The identification of functional modules from the genomic association of genes. Proc. Natl. Acad. Sci. U.S.A. 2002;99:5890–5895. - PMC - PubMed

Publication types