PXD010520-4

PXD010520 is an original dataset announced via ProteomeXchange.

Title	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest
Description	The data presented here was produced using XRNAX - a novel extraction method for protein-crosslinked RNA from UV-crosslinked cells. We apply XRNAX for three proteomic downstream applications. First, we purify ribonucleotide-crosslinked peptides from XRNAX extracts and use their identification as direct evidence for protein-RNA interfaces. Second, we use SILAC, XRNAX and silica enrichment in order to derive high-confidence RNA-binding proteomes from the three human cell lines MCF7, HEK293 and HeLa. Third, using SILAC we quantify total proteomes and RNA-binding proteomes differentially during a time course experiment of arsenite stress in MCF7 cells.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:46:51.786.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sophia Foehr
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-20 07:27:39	ID requested
1	2018-12-06 04:21:58	announced
2	2019-02-12 07:34:04	announced	Updated publication reference for PubMed record(s): 30528433.
3	2019-02-13 06:24:51	announced	Updated project metadata.
⏵ 4	2024-10-22 04:46:59	announced	2024-10-22: Updated project metadata.

Trendel J, Schwarzl T, Horos R, Prakash A, Bateman A, Hentze MW, Krijgsveld J, The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest. Cell, 176(1-2):391-403.e19(2019) [pubmed]

10.1016/j.cell.2018.11.004;

curator keyword: Biomedical

submitter keyword: UV-crosslinking, nucleotide-crosslinked peptides,XRNAX, protein-crosslinked RNA extraction, RNA-binding proteins, arsenite stress, translational arrest, human RNA-binding proteome, ribophagy

Jeroen Krijgsveld
contact affiliation	German Cancer Research Center (DKFZ), Heidelberg, Germany
contact email	j.krijgsveld@dkfz-heidelberg.de
lab head
Sophia Foehr
contact affiliation	DKFZ
contact email	sophia.foehr@dkfz.de
dataset submitter

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/2018/12/PXD010520

PRIDE project URI

• PRIDE
  1. PXD010520
     1. Label: PRIDE project
     2. Name: The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest