PXD074325

PXD074325 is an original dataset announced via ProteomeXchange.

Title	Methylome profiling of SetDB1 deficient ESCs reveals coordinated epigenetic cross-talk during pluripotency
Description	In pluripotent mouse embryonic stem cells (ESCs), SetDB1, which targets up to twenty thousand genomic loci, plays an essential role in regulating various cellular processes, including maintenance of the embryonic stem cell state, differentiation and metabolism. SetDB1 is best known as a chromatin modifier catalyzing H3K9me3. However, recent studies show that SetDB1 can mediate H3K27me3-deposition by PRC2, CTCF-binding, recruit DNA methyltransferases, and potentially regulate additional chromatin processes. To gain further insights, we profiled the chromatin-bound protein landscapes of WT mouse ESCs, as well as SetDB1-deficient mouse ESCs at different time points after inducing Setdb1 KO, using Chromatin Enrichment for Proteomics (ChEP + LC-MS/MS).
HostingRepository	PRIDE
AnnounceDate	2026-08-20
AnnouncementXML	Submission_2026-08-20_06:59:11.483.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nick Bovee
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	L-methionine removal; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2026-02-10 22:48:36	ID requested
⏵ 1	2026-08-20 06:59:11	announced

Dataset with its publication pending

submitter keyword: Embryo, ChEP, epigenetics, conditional KO, ESCs, chromatin, SetDB1

Hendrik Marks
contact affiliation	Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences (RIMLS), Radboud University Nijmegen, 6525 GA Nijmegen, The Netherlands
contact email	hendrik.marks@ru.nl
lab head
Nick Bovee
contact affiliation	RIMLS
contact email	n.bovee@outlook.com
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/2026/08/PXD074325

PRIDE project URI

• PRIDE
  1. PXD074325
     1. Label: PRIDE project
     2. Name: Methylome profiling of SetDB1 deficient ESCs reveals coordinated epigenetic cross-talk during pluripotency