Faculty Opinions recommendation of Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function.

2012 ◽  
Author(s):  
Stafford Lightman ◽  
Charlotte George
Keyword(s):  
Transcription Factor ◽  
Dna Binding ◽  
Genome Wide ◽  
Factor Function

scholarly journals Genome‐wide off‐rates reveal how DNA binding dynamics shape transcription factor function

2020 ◽  
Vol 16 (10) ◽  
Author(s):  
Wim J de Jonge ◽  
Mariël Brok ◽  
Philip Lijnzaad ◽  
Patrick Kemmeren ◽  
Frank CP Holstege
Keyword(s):  
Transcription Factor ◽  
Dna Binding ◽  
Genome Wide ◽  
Factor Function

scholarly journals Genome-wide off-rates reveal how DNA binding dynamics shape transcription factor function

2020 ◽  
Author(s):  
Wim J. de Jonge ◽  
Mariël Brok ◽  
Philip Lijnzaad ◽  
Patrick Kemmeren ◽  
Frank C.P. Holstege
Keyword(s):  
Transcription Factor ◽  
Dna Binding ◽  
Rna Polymerase Ii ◽  
Dna Interaction ◽  
Yeast Genome ◽  
Genome Wide ◽  
Free Region ◽  
Wide Range ◽  
Factor Function

AbstractProtein-DNA interactions are dynamic and these dynamics are an important aspect of chromatin-associated processes such as transcription or replication. Due to a lack of methods to study on- and off-rates across entire genomes, protein-DNA interaction dynamics have not been studied extensively. Here we determine in vivo off-rates for the Saccharomyces cerevisiae chromatin organising factor Abf1, at 191 sites simultaneously across the yeast genome. Average Abf1 residence times span a wide-range, varying between 4.5 and 37 minutes. Sites with different off-rates are associated with different functional characteristics. This includes their transcriptional dependency on Abf1, nucleosome positioning and the size of the nucleosome-free region, as well as the ability to roadblock RNA polymerase II for termination. The results show how off-rates contribute to transcription factor function and that DIVORSEQ (Determining In Vivo Off-Rates by SEQuencing) is a meaningful way of investigating protein-DNA binding dynamics genome-wide.

scholarly journals Genome-wide protein–DNA binding dynamics suggest a molecular clutch for transcription factor function

Nature ◽  
2012 ◽  
Vol 484 (7393) ◽  
pp. 251-255 ◽  
Author(s):  
Colin R. Lickwar ◽  
Florian Mueller ◽  
Sean E. Hanlon ◽  
James G. McNally ◽  
Jason D. Lieb
Keyword(s):  
Transcription Factor ◽  
Dna Binding ◽  
Genome Wide ◽  
Factor Function
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