Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning
Several biological processes, including transcriptional regulation by transcription factors (TFs), are dose-dependent. At the mathematical level, dose-dependent processes can be modelled by fitting dose–response curves, for istance, employing Hill-type equations. At the experimental level, however,...
Saved in:
| Main Author: | |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
The Royal Society
2025-08-01
|
| Series: | Open Biology |
| Subjects: | |
| Online Access: | https://royalsocietypublishing.org/doi/10.1098/rsob.240328 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850038149329190912 |
|---|---|
| author | Gemma Noviello |
| author_facet | Gemma Noviello |
| author_sort | Gemma Noviello |
| collection | DOAJ |
| description | Several biological processes, including transcriptional regulation by transcription factors (TFs), are dose-dependent. At the mathematical level, dose-dependent processes can be modelled by fitting dose–response curves, for istance, employing Hill-type equations. At the experimental level, however, quantitatively regulating, or tuning, endogenous gene expression to characterize dose-dependent processes is challenging. Here, existing methods to fine-tune endogenous gene expression are compared and contrasted. Relatively small TF dosage variations have been shown to underpin cell fate decisions. Nonetheless, the current understanding of the molecular mechanisms by which TFs quantitatively regulate gene expression is limited, due to the paucity of genome-wide studies in endogenous and physiological conditions. Recent works combining quantitative perturbations of TFs and genome-wide response analyses are untangling an underexplored layer of transcriptional control. At the same time, new questions are emerging in the field, which will require further technological advancements in order to be addressed. |
| format | Article |
| id | doaj-art-b09cef67ad9e40dfaef6d5ab12fce1ba |
| institution | DOAJ |
| issn | 2046-2441 |
| language | English |
| publishDate | 2025-08-01 |
| publisher | The Royal Society |
| record_format | Article |
| series | Open Biology |
| spelling | doaj-art-b09cef67ad9e40dfaef6d5ab12fce1ba2025-08-20T02:56:39ZengThe Royal SocietyOpen Biology2046-24412025-08-0115810.1098/rsob.240328Transcriptional regulation as a dose-dependent process: insights from transcription factor tuningGemma Noviello0Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory Rome, Monterotondo, Roma 00015, ItalySeveral biological processes, including transcriptional regulation by transcription factors (TFs), are dose-dependent. At the mathematical level, dose-dependent processes can be modelled by fitting dose–response curves, for istance, employing Hill-type equations. At the experimental level, however, quantitatively regulating, or tuning, endogenous gene expression to characterize dose-dependent processes is challenging. Here, existing methods to fine-tune endogenous gene expression are compared and contrasted. Relatively small TF dosage variations have been shown to underpin cell fate decisions. Nonetheless, the current understanding of the molecular mechanisms by which TFs quantitatively regulate gene expression is limited, due to the paucity of genome-wide studies in endogenous and physiological conditions. Recent works combining quantitative perturbations of TFs and genome-wide response analyses are untangling an underexplored layer of transcriptional control. At the same time, new questions are emerging in the field, which will require further technological advancements in order to be addressed.https://royalsocietypublishing.org/doi/10.1098/rsob.240328transcription factortuningdose-dependent processbinding sites affinityCRISPRdegron |
| spellingShingle | Gemma Noviello Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning Open Biology transcription factor tuning dose-dependent process binding sites affinity CRISPR degron |
| title | Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning |
| title_full | Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning |
| title_fullStr | Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning |
| title_full_unstemmed | Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning |
| title_short | Transcriptional regulation as a dose-dependent process: insights from transcription factor tuning |
| title_sort | transcriptional regulation as a dose dependent process insights from transcription factor tuning |
| topic | transcription factor tuning dose-dependent process binding sites affinity CRISPR degron |
| url | https://royalsocietypublishing.org/doi/10.1098/rsob.240328 |
| work_keys_str_mv | AT gemmanoviello transcriptionalregulationasadosedependentprocessinsightsfromtranscriptionfactortuning |