Deciphering the dynamic code: DNA recognition by transcription factors in the ever-changing genome

Yumi Minyi Yao; Irina Miodownik; Michael P. O’Hagan; Muhammad Jbara; Ariel Afek

doi:10.1080/21541264.2024.2379161

Deciphering the dynamic code: DNA recognition by transcription factors in the ever-changing genome

Yumi Minyi Yao, Irina Miodownik, Michael P. O’Hagan, Muhammad Jbara, Ariel Afek

Research output: Contribution to journal › Review article › peer-review

Abstract

Transcription factors (TFs) intricately navigate the vast genomic landscape to locate and bind specific DNA sequences for the regulation of gene expression programs. These interactions occur within a dynamic cellular environment, where both DNA and TF proteins experience continual chemical and structural perturbations, including epigenetic modifications, DNA damage, mechanical stress, and post-translational modifications (PTMs). While many of these factors impact TF-DNA binding interactions, understanding their effects remains challenging and incomplete. This review explores the existing literature on these dynamic changes and their potential impact on TF-DNA interactions.

Original language	English
Journal	Transcription
DOIs	https://doi.org/10.1080/21541264.2024.2379161
State	Accepted/In press - 1 Jan 2024
Externally published	Yes

Keywords

DNA
DNA damage
DNA mechanics
epigenetic modification
protein-DNA interaction
repair enzyme
transcription factor

ASJC Scopus subject areas

Biotechnology
Biochemistry
Genetics

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10.1080/21541264.2024.2379161

Cite this

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title = "Deciphering the dynamic code: DNA recognition by transcription factors in the ever-changing genome",

abstract = "Transcription factors (TFs) intricately navigate the vast genomic landscape to locate and bind specific DNA sequences for the regulation of gene expression programs. These interactions occur within a dynamic cellular environment, where both DNA and TF proteins experience continual chemical and structural perturbations, including epigenetic modifications, DNA damage, mechanical stress, and post-translational modifications (PTMs). While many of these factors impact TF-DNA binding interactions, understanding their effects remains challenging and incomplete. This review explores the existing literature on these dynamic changes and their potential impact on TF-DNA interactions.",

keywords = "DNA, DNA damage, DNA mechanics, epigenetic modification, protein-DNA interaction, repair enzyme, transcription factor",

author = "Yao, {Yumi Minyi} and Irina Miodownik and O{\textquoteright}Hagan, {Michael P.} and Muhammad Jbara and Ariel Afek",

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AU - Yao, Yumi Minyi

AU - Miodownik, Irina

AU - O’Hagan, Michael P.

AU - Jbara, Muhammad

AU - Afek, Ariel

PY - 2024/1/1

Y1 - 2024/1/1

N2 - Transcription factors (TFs) intricately navigate the vast genomic landscape to locate and bind specific DNA sequences for the regulation of gene expression programs. These interactions occur within a dynamic cellular environment, where both DNA and TF proteins experience continual chemical and structural perturbations, including epigenetic modifications, DNA damage, mechanical stress, and post-translational modifications (PTMs). While many of these factors impact TF-DNA binding interactions, understanding their effects remains challenging and incomplete. This review explores the existing literature on these dynamic changes and their potential impact on TF-DNA interactions.

AB - Transcription factors (TFs) intricately navigate the vast genomic landscape to locate and bind specific DNA sequences for the regulation of gene expression programs. These interactions occur within a dynamic cellular environment, where both DNA and TF proteins experience continual chemical and structural perturbations, including epigenetic modifications, DNA damage, mechanical stress, and post-translational modifications (PTMs). While many of these factors impact TF-DNA binding interactions, understanding their effects remains challenging and incomplete. This review explores the existing literature on these dynamic changes and their potential impact on TF-DNA interactions.

KW - DNA

KW - DNA damage

KW - DNA mechanics

KW - epigenetic modification

KW - protein-DNA interaction

KW - repair enzyme

KW - transcription factor

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U2 - 10.1080/21541264.2024.2379161

DO - 10.1080/21541264.2024.2379161

M3 - Review article

C2 - 39033307

AN - SCOPUS:85199053147

SN - 2154-1264

JO - Transcription

JF - Transcription

ER -

Deciphering the dynamic code: DNA recognition by transcription factors in the ever-changing genome

Abstract

Keywords

ASJC Scopus subject areas

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