Eukaryotic Gene Regulation

2018 ◽  
Author(s):  
Gerald M. Kolodny
Keyword(s):  
Gene Regulation ◽  
Eukaryotic Gene ◽  
Eukaryotic Gene Regulation

Mapping the dynamic transfer functions of eukaryotic gene regulation

Cell Systems ◽  
2021 ◽  
Author(s):  
Jessica B. Lee ◽  
Leandra M. Caywood ◽  
Jennifer Y. Lo ◽  
Nicholas Levering ◽  
Albert J. Keung
Keyword(s):  
Gene Regulation ◽  
Transfer Functions ◽  
Eukaryotic Gene ◽  
Eukaryotic Gene Regulation

scholarly journals Long noncoding RNAs in renal diseases

ExRNA ◽  
2019 ◽  
Vol 1 (1) ◽  
Author(s):  
Minghui Liu ◽  
Jie Ren
Keyword(s):  
Gene Regulation ◽  
Kidney Diseases ◽  
Noncoding Rnas ◽  
Long Noncoding Rnas ◽  
Renal Diseases ◽  
Malignant Cells ◽  
Transcriptional Noise ◽  
The Past ◽  
Eukaryotic Gene ◽  
Eukaryotic Gene Regulation

AbstractLong noncoding RNAs (lncRNAs) play critical roles in eukaryotic gene regulation and diseases, rather than being merely transcriptional “noise”. Over the past decade, the study of lncRNAs has emerged as a burgeoning field of research and expanded our knowledge of their functions and underlining mechanisms in both normal and malignant cells. However, lncRNAs are still one of the least understood groups of transcripts. Here, we review the classifications and functions of lncRNAs and their roles in renal diseases. This review will provide insights into the roles of lncRNAs in pathogenesis, diagnosis and therapeutics of renal diseases and indications of lncRNAs as potential targets for the treatment of kidney diseases.

scholarly journals Allosteric conformational ensembles have unlimited capacity for integrating information

2020 ◽  
Author(s):  
John W Biddle ◽  
Rosa Martinez-Corral ◽  
Felix Wong ◽  
Jeremy Gunawardena
Keyword(s):  
Gene Regulation ◽  
Energy Expenditure ◽  
Recent Work ◽  
Information Integration ◽  
Conformational Dynamics ◽  
Higher Order ◽  
Conformational Ensembles ◽  
Cellular Processes ◽  
Eukaryotic Gene ◽  
Eukaryotic Gene Regulation

Integration of binding information by macromolecular entities is fundamental to cellular functionality. Recent work has shown that such integration cannot be explained by pairwise cooperativities, in which binding is modulated by binding at another site. Higher-order cooperativities (HOCs), in which binding is collectively modulated by multiple other binding events, appears to be necessary but an appropriate mechanism has been lacking. We show here that HOCs arise through allostery, in which effective cooperativity emerges indirectly from an ensemble of dynamically-interchanging conformations. Conformational ensembles play important roles in many cellular processes but their integrative capabilities remain poorly understood. We show that sufficiently complex ensembles can implement any form of information integration achievable without energy expenditure, including all HOCs. Our results provide a rigorous biophysical foundation for analysing the integration of binding information through allostery. We discuss the implications for eukaryotic gene regulation, where complex conformational dynamics accompanies widespread information integration.

scholarly journals Allosteric conformational ensembles have unlimited capacity for integrating information

eLife ◽  
2021 ◽  
Vol 10 ◽  
Author(s):  
John W Biddle ◽  
Rosa Martinez-Corral ◽  
Felix Wong ◽  
Jeremy Gunawardena
Keyword(s):  
Gene Regulation ◽  
Energy Expenditure ◽  
Recent Work ◽  
Information Integration ◽  
Conformational Dynamics ◽  
Higher Order ◽  
Conformational Ensembles ◽  
Cellular Processes ◽  
Eukaryotic Gene ◽  
Eukaryotic Gene Regulation

Integration of binding information by macromolecular entities is fundamental to cellular functionality. Recent work has shown that such integration cannot be explained by pairwise cooperativities, in which binding is modulated by binding at another site. Higher-order cooperativities (HOCs), in which binding is collectively modulated by multiple other binding events, appear to be necessary but an appropriate mechanism has been lacking. We show here that HOCs arise through allostery, in which effective cooperativity emerges indirectly from an ensemble of dynamically interchanging conformations. Conformational ensembles play important roles in many cellular processes but their integrative capabilities remain poorly understood. We show that sufficiently complex ensembles can implement any form of information integration achievable without energy expenditure, including all patterns of HOCs. Our results provide a rigorous biophysical foundation for analysing the integration of binding information through allostery. We discuss the implications for eukaryotic gene regulation, where complex conformational dynamics accompanies widespread information integration.

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