Microarray-based identification of transcription factor target genes

Methods Mol Biol. 2011:754:119-41. doi: 10.1007/978-1-61779-154-3_7.

Abstract

Microarray analysis is widely used to identify transcriptional changes associated with genetic perturbation or signaling events. Here we describe its application in the identification of plant transcription factor target genes with emphasis on the design of suitable DNA constructs for controlling TF activity, the experimental setup, the statistical analysis of the microarray data, and the validation of target genes.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Chromatin Immunoprecipitation / methods
  • DNA-Binding Proteins
  • Gene Amplification
  • Mutation
  • Oligonucleotide Array Sequence Analysis / methods*
  • Plants / genetics*
  • Polymerase Chain Reaction / methods*
  • RNA, Plant / genetics
  • Signal Transduction / genetics
  • Transcription Factors / genetics*

Substances

  • DNA-Binding Proteins
  • RNA, Plant
  • Transcription Factors