known and predicted protein-protein interactions
Tutorial and training materials by OpenHelix
|Learn to use STRING, a database of known and predicted protein-protein interactions. Predictions are based on a series of evidences such as gene neighborhood, patterns of co-expression, text-mining of the literature and more. STRING allows the user to view data from individual evidences of interaction or view a 'network' of interactions among a collection of proteins. Learn to use this resource and find interaction predictions to facilitate characterization of gene and protein function.|
- how to search for predicted interactions with a selected gene product
- how to view networks of interactions among individual molecules or COGs
- the many types of evidences of interaction and how to analyze them
- how to find information from outside sources used in the predictions
This tutorial is a part of the tutorial group Bork Group Resources. You might find the other tutorials in the group interesting:
Recent BioMed Central research articles citing this resource
Garg Bharti et al., In-silico analysis and expression profiling implicate diverse role of EPSPS family genes in regulating developmental and metabolic processes. BMC Research Notes (2014) doi:10.1186/1756-0500-7-58
Chou Hsiu-Chuan et al., Effect of glutathione reductase knockdown in response to UVB-induced oxidative stress in human lung adenocarcinoma. Proteome Science (2014) doi:10.1186/1477-5956-12-2
Ingale G Arun et al., Prediction of CTL epitope, in silico modeling and functional analysis of cytolethal distending toxin (CDT) protein of Campylobacter jejuni. BMC Research Notes (2014) doi:10.1186/1756-0500-7-92
Pio Gianvito et al., Integrating microRNA target predictions for the discovery of gene regulatory networks: a semi-supervised ensemble learning approach Integrated Bio-Search: Selected Works from the 12th International Workshop on Network Tools and Applications in Biology (NETTAB 2012) Integrated Bio-Search: 12th International Workshop on Network Tools and Applications in Biology (NETTAB 2012). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-S1-S4
Gachomo W Emma et al., GIGANTUS1 (GTS1), a member of Transducin/WD40 protein superfamily, controls seed germination, growth and biomass accumulation through ribosome-biogenesis protein interactions in Arabidopsis thaliana Development and cell biology. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-37
More about the resource:
The STRING database of predicted molecular interactions was developed by the Bork Lab at the European Molecular Biology Laboratory (EMBL) in Heidelberg Germany. Predictions are based on a series of evidences and given scores of probability. Researchers can search for specific protein interactions (using gene name or other identifiers) or search for COG (Cluster of Orthologous Groups) predicted interactions. Most data views link out to other more detailed databases. This resource is a free publicly available tool.
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