PXD044237
PXD044237 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | TurboCas: A method for locus-specific dynamic labeling of genomic regions and their protein interactome |
| Description | The regulation of gene expression is a complex process that requires the concerted action of transcription factors and chromatin binding proteins. Because this process is both unique to a given locus and varied in response to changing cellular conditions, dynamically mapping the chromatin binding activity at individual promoters and other regulatory loci is crucial to understanding how cis-regulatory elements control gene expression. Earlier methods could only characterize the static binding activity of a single given protein. However, the recent emergence of proximity labeling, a technique for interrogating protein-protein interactions, and the advances brought about by CRISPR technology have enabled the development of new methods that can dynamically map the chromatin binding and secondary association of multiple proteins at given loci. In this study we describe TurboCas, a method that leverages the latest generation of proximity labeling enzymes, miniTurbo, in combination with catalytically dead Cas9 to label chromatin-binding proteins efficiently, dynamically and in a site-specific manner. We demonstrate the use of TurboCas to identify proteins binding the promoter of the heat shock responsive FOS gene. At the FOS promoter, we identify both canonical regulators, such as HSPA8 and members of the HSP network; and members of novel pathways, including the Hippo pathway, fatty acid synthesis pathways and the SUMOylation pathway. TurboCas represents a significant improvement over previous locus-targeted proximity labelling methods, with the potential not only to deepen our understanding of regulatory pathways in cellular stress response, but more broadly to advance the transcriptional regulation and chromatin biology fields. |
| HostingRepository | MassIVE |
| AnnounceDate | 2023-11-13 |
| AnnouncementXML | Submission_2023-11-13_11:20:32.161.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | Bercin Cenik |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | No PTMs are included in the dataset |
| Instrument | Orbitrap Eclipse |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-07-31 11:54:14 | ID requested | |
| ⏵ 1 | 2023-11-13 11:20:32 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: heat shock, proximity labeling, FOS, dCas9 |
Contact List
| Bercin Cenik | |
|---|---|
| contact affiliation | Northwestern University |
| contact email | bercin.cenik@northwestern.edu |
| lab head | |
| Bercin Cenik | |
| contact affiliation | Northwestern University |
| contact email | bercin.cenik@northwestern.edu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000092561/ |
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