PXD044659-1

PXD044659 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Targeted RNase H-mediated Extraction of crosslinked RBPs (TREX) for deciphering the region-specific interactome of 45S rRNA
Description	We used Targeted RNase H-mediated Extraction of crosslinked RBPs (TREX)to assess the endogenous region-specific binding partners of 45S rRNA in human HCT116 cells. We performed TREX experiments against the full-length 45S, as well as each individual region (5'ETS. 18S, ITS1, 5.8S, ITS2, 28S, and 3'ETS). Extracted proteins from RNase H digested and control cells (4 or 5 replicate per region per condition) were compared, using label-free (LFQ) Quantitative proteomics.
HostingRepository	PRIDE
AnnounceDate	2023-12-27
AnnouncementXML	Submission_2023-12-27_09:29:48.158.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Faraz Mardakheh
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive Plus

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-19 07:29:23	ID requested
⏵ 1	2023-12-27 09:29:48	announced
2	2024-10-22 06:18:44	announced	2024-10-22: Updated project metadata.

Publication List

10.1101/2023.06.30.547259;

10.1101/2023.06.30.547259;

Keyword List

submitter keyword: 45S rRNA
pre-rRNA
rRNA
5'ETS
ITS1
ITS2
3'ETS
18S
28S
5.8S
TREX
RBP
RNA Interactome
LC-MS/MS
Quantitative proteomics

submitter keyword: 45S rRNA

pre-rRNA

rRNA

5'ETS

ITS1

ITS2

3'ETS

18S

28S

5.8S

TREX

RBP

RNA Interactome

LC-MS/MS

Quantitative proteomics

Contact List

Faraz Mardakheh
contact affiliation	Centre for Cancer Cell & Molecular Biology Barts Cancer Institute Queen Mary University of London Charterhouse Square London EC1M 6BQ U.K.
contact email	f.mardakheh@qmul.ac.uk
lab head
Faraz Mardakheh
contact affiliation	Barts Cancer Institute
contact email	f.mardakheh@qmul.ac.uk
dataset submitter

Full Dataset Link List

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PRIDE project 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://ftp.pride.ebi.ac.uk/pride/data/archive/2023/12/PXD044659

PRIDE project URI

Repository Record List

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