PXD031882

PXD031882 is an original dataset announced via ProteomeXchange.

Title	Ablation of Histone H1.4 Reveals Focal Regulation of AP-1 Directed Enhancers
Description	Nucleosomes are flanked by histone H1’s which bind linker DNA and aid chromatin compaction. The specific role of linker histone has remained elusive due to complex compensatory mechanisms among H1 variants. H1.4 ablation resulted in robust changes in nascent transcription and gene expression, with critical pathways upregulated (RAR, TNF-α/NF-κB) and extracellular matrix and collagen genes repressed. Alternations to chromatin accessibility intersected extragenic and intronic regions, overlapped sites of known enhancer chromatin, and were of enhancer-size. These sites exhibited concomitant and concordant changes to epigenetic marks (H3K27ac/H3K4me1). Sites which gained accessibility contained binding motifs for basal factors (TBP, SRF), localized to polycomb, heterochromatin and quiescent/low chromatin and gained active RNA transcription in ΔH1.4 cells. However, the AP-1 motif was enriched at sites which lost accessibility, consistent with the gene expression changes. This places histone H1.4 as a hitherto underappreciated regulator of transcriptional response patterns and a dynamic member of regulatory chromatin.
HostingRepository	PRIDE
AnnounceDate	2025-07-18
AnnouncementXML	Submission_2025-07-18_15:25:12.846.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD031882
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Nolan Gokey
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	2022-02-24 10:26:46	ID requested
⏵ 1	2025-07-18 15:25:13	announced

10.6019/PXD031882;

submitter keyword: ATAC-seq, 4sU-seq, AP-1,Linker Histone H1.4, LC/MS, chromatin, human osteosarcoma

Trevor Archer
contact affiliation	Laboratory of Epigenetics and Stem Cell Biology, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA.
contact email	archer1@niehs.nih.gov
lab head
Nolan Gokey
contact affiliation	Laboratory of Epigenetics and Stem Cell Biology, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA.
contact email	nolan.gokey@nih.gov
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/2025/07/PXD031882

PRIDE project URI

• PRIDE
  1. PXD031882
     1. Label: PRIDE project
     2. Name: Ablation of Histone H1.4 Reveals Focal Regulation of AP-1 Directed Enhancers