RRC ID 31777
Author Ogino H, Ochi H, Uchiyama C, Louie S, Grainger RM.
Title Comparative genomics-based identification and analysis of cis-regulatory elements.
Journal Methods Mol Biol
Abstract Identification of cis-regulatory elements, such as enhancers and promoters, is very important not only for analysis of gene regulatory networks but also as a tool for targeted gene expression experiments. In this chapter, we introduce an easy but reliable approach to predict enhancers of a gene of interest by comparing mammalian and Xenopus genome sequences, and to examine their activity using a co-transgenesis technique in Xenopus embryos. Since the bioinformatics analysis utilizes publically available web tools, bench biologists can easily perform it without any need for special computing capability. The co-transgenesis assay, which directly uses polymerase chain reaction products, quickly screens for the activity of the candidate elements in a cloning-free manner.
Volume 917
Pages 245-63
Published 2012-1-1
DOI 10.1007/978-1-61779-992-1_15
PMID 22956093
PMC PMC3916185
MeSH Animals Base Sequence Conserved Sequence DNA / genetics DNA / isolation & purification Enhancer Elements, Genetic* Gene Transfer Techniques Genes, Reporter Genome Genomics Green Fluorescent Proteins / biosynthesis Green Fluorescent Proteins / genetics Humans Molecular Sequence Data Phylogeny Promoter Regions, Genetic* RNA, Untranslated / genetics Sequence Alignment Sequence Analysis, DNA Software Xenopus / genetics* Xenopus Proteins / genetics
Xenopus tropicalis Nigerian H line