Elucidating the biology of transcription factor-DNA interaction for accurate identification of cis-regulatory elements

Mohsen Hajheidari; Shao-Shan Carol Huang

doi:10.1016/j.pbi.2022.102232

Elucidating the biology of transcription factor-DNA interaction for accurate identification of cis-regulatory elements

Curr Opin Plant Biol. 2022 Aug:68:102232. doi: 10.1016/j.pbi.2022.102232. Epub 2022 Jun 6.

Authors

Mohsen Hajheidari¹, Shao-Shan Carol Huang²

Affiliations

¹ Center for Genomics and Systems Biology, Department of Biology, New York University, 12 Waverly Pl, New York, NY 10003, USA.
² Center for Genomics and Systems Biology, Department of Biology, New York University, 12 Waverly Pl, New York, NY 10003, USA. Electronic address: s.c.huang@nyu.edu.

Abstract

Transcription factors (TFs) play a critical role in determining cell fate decisions by integrating developmental and environmental signals through binding to specific cis-regulatory modules and regulating spatio-temporal specificity of gene expression patterns. Precise identification of functional TF binding sites in time and space not only will revolutionize our understanding of regulatory networks governing cell fate decisions but is also instrumental to uncover how genetic variations cause morphological diversity or disease. In this review, we discuss recent advances in mapping TF binding sites and characterizing the various parameters underlying the complexity of binding site recognition by TFs.

Keywords: Cis-regulatory elements; Gene regulation; Transcription factor-DNA interaction; Transcription factors; Transcriptional regulation.

Publication types

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

MeSH terms

Binding Sites
Biology
DNA* / metabolism
Protein Binding
Transcription Factors* / genetics
Transcription Factors* / metabolism

Substances

Transcription Factors
DNA

Grants and funding

R35 GM138143/GM/NIGMS NIH HHS/United States