PXD057811 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | ncRNA DUBR RAP-MS in HCT116 cells |
Description | Non-coding RNAs (ncRNAs) are finely tuned cellular regulators important for human cell growth and cancer progression. DUBR (also known as linc00883) is a nuclear ncRNA first discovered in mice for its role in regulating myoblast differentiation through interactions with chromatin and DNA methyltransferases. High expression levels of this ncRNA are predictive of poor patient outcome in colon adenocarcinoma, suggesting that DUBR may be involved in controlling cancer growth. To elucidate its function, we used RAP-MS and RNA immunoprecipitation techniques which revealed its interaction with epigenetic maintenance proteins in the human colon cancer cell line HCT116. Further, ATAC-seq and RNA-seq were used to address its function in regulating the epigenome and transcriptome of HCT116 cells. Here we report that DUBR is a regulator of human colon cancer cell line HCT116 survival. |
HostingRepository | PRIDE |
AnnounceDate | 2025-05-07 |
AnnouncementXML | Submission_2025-05-07_04:56:40.236.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Colleen McHugh |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2024-11-12 13:17:11 | ID requested | |
⏵ 1 | 2025-05-07 04:56:41 | announced | |
Publication List
10.1007/s10142-025-01582-5; |
Hall SD, Tran K, Zhu J, Su T, McHugh CA, DUBR non-coding RNA regulates gene expression by affecting AP-1 enhancer accessibility. Funct Integr Genomics, 25(1):68(2025) [pubmed] |
Keyword List
submitter keyword: DUBR, HCT116,ncRNA, RAP-MS |
Contact List
Dr. Colleen Adare McHugh |
contact affiliation | Department of Chemistry and Biochemistry, University of California San Diego |
contact email | c1mchugh@ucsd.edu |
lab head | |
Colleen McHugh |
contact affiliation | University of California San Diego |
contact email | c1mchugh@ucsd.edu |
dataset submitter | |
Full Dataset Link List
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://ftp.pride.ebi.ac.uk/pride/data/archive/2025/05/PXD057811 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD057811
- Label: PRIDE project
- Name: ncRNA DUBR RAP-MS in HCT116 cells