Back to Search
Start Over
PlanNET: homology-based predicted interactome for multiple planarian transcriptomes.
- Source :
- Bioinformatics; 3/15/2018, Vol. 34 Issue 6, p1016-1023, 8p
- Publication Year :
- 2018
-
Abstract
- Motivation: Planarians are emerging as a model organism to study regeneration in animals. However, the little available data of protein--protein interactions hinders the advances in understanding the mechanisms underlying its regenerating capabilities. Results: We have developed a protocol to predict protein--protein interactions using sequence homology data and a reference Human interactome. This methodology was applied on 11 Schmidtea mediterranea transcriptomic sequence datasets. Then, using Neo4j as our database manager, we developed PlanNET, a web application to explore the multiplicity of networks and the associated sequence annotations. By mapping RNA-seq expression experiments onto the predicted networks, and allowing a transcript-centric exploration of the planarian interactome, we provide researchers with a useful tool to analyse possible pathways and to design new experiments, as well as a reproducible methodology to predict, store, and explore protein interaction networks for non-model organisms. [ABSTRACT FROM AUTHOR]
Details
- Language :
- English
- ISSN :
- 13674803
- Volume :
- 34
- Issue :
- 6
- Database :
- Complementary Index
- Journal :
- Bioinformatics
- Publication Type :
- Academic Journal
- Accession number :
- 128584353
- Full Text :
- https://doi.org/10.1093/bioinformatics/btx738