PXD042945-2

PXD042945 is an original dataset announced via ProteomeXchange.

Title	Systematic assessment of ISWI subunits reveals that NURF creates local accessibility for proper CTCF function
Description	Catalytic activity of the ISWI family of remodelers is critical for nucleosomal organization and transcription factor binding, including the insulator protein CTCF. To define which subcomplex mediates these diverse functions we phenotyped a panel of isogenic mouse stem cell lines each lacking one of six ISWI accessory subunits. Individual deletions of either CERF, RSF1, ACF, WICH or NoRC subcomplexes only moderately affect the chromatin landscape, while removal of the NURF-specific subunit BPTF leads to drastic reduction in chromatin accessibility and Snf2h ATPase localization around CTCF sites. While this reduces distances to the adjacent nucleosomes it only modestly impacts CTCF binding itself. In absence of accessibility, the insulator function of CTCF is nevertheless impaired resulting in lower occupancy of cohesin and cohesin-loading factors, and reduced insulation at these sites, highlighting the need of NURF-mediated remodeling for open chromatin and proper CTCF function. Our comprehensive analysis reveals a specific role for NURF in mediating Snf2h localization and chromatin opening at bound CTCF sites showing that local accessibility is critical for cohesin binding and insulator function.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:33:18.039.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniel Hess
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-13 08:43:12	ID requested
1	2024-03-13 07:53:35	announced
⏵ 2	2024-10-22 06:33:18	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Snf2h, chromatin remodelers, IP-MS, ISWI,mESC

Dirk Schuebeler
contact affiliation	Department of Gene Regulation Friedrich Miescher Institutefor Biomedical Research
contact email	dirk.schubeler@fmi.ch
lab head
Daniel Hess
contact affiliation	Friedrich Miescher Institute for Biomedical Research
contact email	dhess@fmi.ch
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/2024/03/PXD042945

PRIDE project URI

• PRIDE
  1. PXD042945
     1. Label: PRIDE project
     2. Name: Systematic assessment of ISWI subunits reveals that NURF creates local accessibility for proper CTCF function