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
Coelho D Edgar et al., Computational prediction of the human-microbial oral interactome Systems physiology, pharmacology and medicine. BMC Systems Biology (2014) doi:10.1186/1752-0509-8-24
Westergaard David et al., Exploring mechanisms of diet-colon cancer associations through candidate molecular interaction networks Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-380
Rahmad Norasfaliza et al., Comparative proteomic analysis of different developmental stages of the edible mushroom Termitomyces heimii. Biological Research (2014) doi:10.1186/0717-6287-47-30
Fortino Vittorio et al., Transcriptome dynamics-based operon prediction in prokaryotes Sequence analysis (methods). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-145
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
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.
The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.