Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to identify functional regulatory DNA in insect genomes

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Differential regulation of gene expression determines cell-type-specific function, making identification of the cis-regulatory elements that control gene expression a central goal of developmental biology. In addition, changes in the sequence of cis-regulatory elements are thought to drive changes in gene expression patterns between species, making comparisons of cis-regulatory element usage important for evolutionary biology as well. Due to the number of extant species and the incredible morphological diversity that they exhibit, insects are favorite model organisms for both developmental and evolutionary biologists alike. However, identifying cis-regulatory elements in insect genomes is challenging. Here, I describe a method termed FAIRE-seq (Formaldehyde-Assisted Isolation of Regulatory Elements, followed by high-throughput sequencing) that can be used to identify functional DNA regulatory elements from developing insect tissues, genome-wide.

LanguageEnglish (US)
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages89-97
Number of pages9
DOIs
StatePublished - Jan 1 2019

Publication series

NameMethods in Molecular Biology
Volume1858
ISSN (Print)1064-3745

Fingerprint

Insect Genome
Formaldehyde
Gene Expression
Developmental Biology
DNA
Gene Expression Regulation
Insects

Keywords

  • Cis-regulatory element
  • Drosophila development
  • Enhancer
  • FAIRE
  • Open chromatin

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to identify functional regulatory DNA in insect genomes. / Mckay, Daniel James.

Methods in Molecular Biology. Humana Press Inc., 2019. p. 89-97 (Methods in Molecular Biology; Vol. 1858).

Research output: Chapter in Book/Report/Conference proceedingChapter

Mckay, Daniel James. / Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to identify functional regulatory DNA in insect genomes. Methods in Molecular Biology. Humana Press Inc., 2019. pp. 89-97 (Methods in Molecular Biology).
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