Back to Search Start Over

Coexpression and cosplicing network approaches for the study of mammalian brain transcriptomes.

Coexpression and cosplicing network approaches for the study of mammalian brain transcriptomes.

Authors :
Iancu OD
Colville A
Darakjian P
Hitzemann R
Source :
International review of neurobiology [Int Rev Neurobiol] 2014; Vol. 116, pp. 73-93.
Publication Year :
2014

Abstract

Next-generation sequencing experiments have demonstrated great potential for transcriptome profiling. While transcriptome sequencing greatly increases the level of biological detail, system-level analysis of these high-dimensional datasets is becoming essential. We illustrate gene network approaches to the analysis of transcriptional data, with particular focus on the advantage of RNA-Seq technology compared to microarray platforms. We introduce a novel methodology for constructing cosplicing networks, based on distance measures combined with matrix correlations. We find that the cosplicing network is distinct and complementary to the coexpression network, although it shares the scale-free properties. In the cosplicing network, we find a set of novel hubs that have unique characteristics distinguishing them from coexpression hubs: they are heavily represented in neurobiological functional pathways and have strong overlap with markers of neurons and neuroglia, long-coding lengths, and high number of both exons and annotated transcripts. We also find that gene networks are plastic in the face of genetic and environmental pressures.<br /> (© 2014 Elsevier Inc. All rights reserved.)

Details

Language :
English
ISSN :
2162-5514
Volume :
116
Database :
MEDLINE
Journal :
International review of neurobiology
Publication Type :
Academic Journal
Accession number :
25172472
Full Text :
https://doi.org/10.1016/B978-0-12-801105-8.00004-7