Activate license key | Login | Register
OpenHelix

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.
Advertisement:

You'll learn:

  • 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


Related tutorials

This tutorial is a part of the tutorial group Bork Group Resources. You might find the other tutorials in the group interesting:

  • XplorMed: eXploring Medline abstracts
  • SMART: Protein domain annotation and analysis of domain architectures

Categories

View additional tutorials for resources in

Recent BioMed Central research articles citing this resource

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

Parsaeyan Nayereh et al., Beneficial effects of cocoa on lipid peroxidation and inflammatory markers in type 2 diabetic patients and investigation of probable interactions of cocoa active ingredients with prostaglandin synthase-2 (PTGS-2/COX-2) using virtual analysis. Journal of Diabetes Metabolic Disorders (2014) doi:10.1186/2251-6581-13-30

Fortino Vittorio et al., Transcriptome dynamics-based operon prediction in prokaryotes Sequence analysis (methods). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-145

Tseng Feng-Jen et al., Interactomics profiling of the negative regulatory function of carbon monoxide on RANKL-treated RAW 264.7 cells during osteoclastogenesis Empirical systems biology. BMC Systems Biology (2014) doi:10.1186/1752-0509-8-57

de Viron Sylviane et al., Genetic similarities between tobacco use disorder and related comorbidities: an exploratory study Psychiatric molecular genetics. BMC Medical Genetics (2014) doi:10.1186/1471-2350-15-85

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.


Click here for technical information on using OpenHelix tutorial and training materials

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.

design & development: biobyte solutions