Integrating expression data with domain interaction networks.

Bioinformatics
Dorothea EmigMario Albrecht

Abstract

Recent studies have revealed that alternative splicing plays an important role in the observed protein and interaction diversity. Special microarrays allow for measuring gene expression at the exon level and thus for studying alternative transcripts and their corresponding protein domain architecture. We have developed the Cytoscape plugin DomainGraph that enables the visualization and detailed study of domain-domain interactions forming protein interaction networks. In addition, the integration of exon expression data supports the analysis of alternative splicing events and the characterization of their effects on the protein and domain interaction network. Different expression patterns between human tissues or cells can be identified by comparing the generated domain graphs. The plugin DomainGraph and the online documentation are available at http://domaingraph.bioinf.mpi-inf.mpg.de.

References

Dec 26, 2001·Nucleic Acids Research·Alex BatemanErik L L Sonnhammer
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Citations

Dec 7, 2013·Interdisciplinary Sciences, Computational Life Sciences·Irina Afrodita Roznovăţ, Heather J Ruskin
Jun 2, 2010·Nucleic Acids Research·Dorothea EmigMario Albrecht
Nov 16, 2010·BMC Systems Biology·Youping DengEdward J Perkins
Mar 15, 2015·Journal of Clinical Bioinformatics·Arnold I EmersonJoel A Malek

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Software Mentioned

Cytoscape Attribute Browser
Expression Console
Visual Style
- Builder
DomainNetwork
Cytoscape
Affymetrix Power Tools
Affymetrix
Attribute Browser
Ensembl

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Alternative splicing

Alternative splicing a regulated gene expression process that allows a single genetic sequence to code for multiple proteins. Here is that latest research.