Transcription regulatory networks analysis using CAGE

Jesper N. Tegnér, Johan L M Björkegren, Timothy Ravasi, Vladimir B. Bajic

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Mapping out cellular networks in general and transcriptional networks in particular has proved to be a bottle-neck hampering our understanding of biological processes. Integrative approaches fusing computational and experimental technologies for decoding transcriptional networks at a high level of resolution is therefore of uttermost importance. Yet, this is challenging since the control of gene expression in eukaryotes is a complex multi-level process influenced by several epigenetic factors and the fine interplay between regulatory proteins and the promoter structure governing the combinatorial regulation of gene expression. In this chapter we review how the CAGE data can be integrated with other measurements such as expression, physical interactions and computational prediction of regulatory motifs, which together can provide a genome-wide picture of eukaryotic transcriptional regulatory networks at a new level of resolution. © 2010 by Pan Stanford Publishing Pte. Ltd. All rights reserved.
Original languageEnglish (US)
Title of host publicationCap-Analysis Gene Expression (CAGE): The Science of Decoding Genes Transcription
PublisherPan Stanford Publishing Pte. Ltd.
Pages153-168
Number of pages16
ISBN (Print)9789814241342
DOIs
StatePublished - Oct 1 2009

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