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. 2006:4:e018.
doi: 10.1621/nrs.04018. Epub 2006 Jul 7.

Genome-wide approaches for identification of nuclear receptor target genes

Luz E Tavera-Mendoza  1 , Sylvie Mader, John H White
Affiliations

Genome-wide approaches for identification of nuclear receptor target genes

Luz E Tavera-Mendoza et al. Nucl Recept Signal. 2006.

Abstract

Large-scale genomics analyses have grown by leaps and bounds with the rapid advances in high throughput DNA sequencing and synthesis techniques. Nuclear receptor signaling is ideally suited to genomics studies because receptors function as ligand-regulated gene switches. This review will survey the strengths and limitations of three major classes of high throughput techniques widely used in the nuclear receptor field to characterize ligand-dependent gene regulation: expression profiling studies (microarrays, SAGE and related techniques), chromatin immunoprecipitation followed by microarray (ChIP-on-chip), and genome-wide in silico hormone response element screens. We will discuss each technique, and how each has contributed to our understanding of nuclear receptor signaling.

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Figures

Figure 1
Figure 1. Generation of tag-based libraries by SAGE and CAGE
Schematic representations of SAGE (left) and CAGE (right) techniques for generation of tagged expression libraries. In SAGE, mRNA sequences are captured on oligo(dT) magnetic beads (yellow spheres). In CAGE, 5’ ends of mRNAs are extracted from total or polyA+ RNA using the CAP-trapper approach. See [Harbers, 2005] and [Porter, 2006] for details.
See this image and copyright information in PMC

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