Novel high-throughput profiling of human transcription factors and its use for systematic pathway mapping

Ji Ying Qiao, Wei Shao, Hua Jiang Wei, Yi Min Sun, Yong Chao Zhao, Wan Li Xing, Liang Zhang, Keith Mitchelson, Jing Cheng

Research output: Contribution to journalArticlepeer-review

Abstract

Transcription factors (TFs) are crucial components of regulatory networks that control gene transcription. Current TF assays are limited to the analysis of a single TF or require TF-specific antibodies. Here we report the Single Primer Amplification assisted Oligonucleotide Array-based Transcription Factor Assay (SPA-OATFA) which can directly analyze the binding activities of 240 human TFs simultaneously. Examining early events during serum-stimulation of HeLa cells as a model, we demonstrated the utility of SPA-OATFA combined with whole genome gene expression to systematically map the temporal activation of signaling pathways. Both TFs known to function in this stimulation response such as EGR1 and AP1 and new TFs such as HSF1 were identified. This information, combined with mRNA profiling, provided novel insights into the activities of regulatory pathways, and illustrates the potential of SPA-OATFA in detailed systems biology analysis of cell responses.

Original languageEnglish (US)
Pages (from-to)2769-2779
Number of pages11
JournalJournal of proteome research
Volume7
Issue number7
DOIs
StatePublished - Jul 1 2008

Keywords

  • High-throughput profiling
  • Single primer amplification assisted oligonucleotide array-based transcription factor assay (SPA-OATFA)
  • Systems biology
  • Time course
  • Transcription factor binding activity

ASJC Scopus subject areas

  • Biochemistry
  • Chemistry(all)

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