Article

 

Detecting Differential Transcription Factor Activity from ATAC-Seq Data. Public Deposited

https://scholar.colorado.edu/concern/articles/vt150j94w
Abstract
  • Transcription factors are managers of the cellular factory, and key components to many diseases. Many non-coding single nucleotide polymorphisms affect transcription factors, either by directly altering the protein or its functional activity at individual binding sites. Here we first briefly summarize high-throughput approaches to studying transcription factor activity. We then demonstrate, using published chromatin accessibility data (specifically ATAC-seq), that the genome-wide profile of TF recognition motifs relative to regions of open chromatin can determine the key transcription factor altered by a perturbation. Our method of determining which TFs are altered by a perturbation is simple, is quick to implement, and can be used when biological samples are limited. In the future, we envision that this method could be applied to determine which TFs show altered activity in response to a wide variety of drugs and diseases.
Creator
Date Issued
  • 2018-05-10
Academic Affiliation
Journal Title
Journal Issue/Number
  • 5
Journal Volume
  • 23
Subject
Last Modified
  • 2019-12-05
Identifier
  • PubMed ID: 29748466
Resource Type
Rights Statement
DOI
ISSN
  • 1420-3049
Language
License

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