PXD039212

PXD039212 is an original dataset announced via ProteomeXchange.

Title	Proteomic Characterization of human small airway epithelial cells (hSAECs) in the context of respiratory syncytial virus infection and BRD4 inhibition.
Description	Bromodomain-containing Protein 4 (BRD4) is a transcriptional regulator associated with cancer biology, inflammation, and fibrosis. In airway viral infection, non-toxic BRD4-specific inhibitors (BRD4i) block the release of pro- inflammatory cytokines and prevent downstream remodeling. Although the chromatin modifying functions of BRD4 in inducible gene expression have been extensively investigated, its roles in post-transcriptional regulation are not as well understood. Based on its interaction with transcriptional elongation complex and spiceosome, we hypothesize that BRD4 is a functional regulator of RNA processing. To address this question, we combine data-independent analysis - parallel accumulation-serial fragmentation (diaPASEF) with RNA-sequencing to achieve deep coverage of the proteomic and transcriptomic landscape of human small airway epithelial cells exposed to viral challenge and treated with BRD4i. The transcript-level data was further interrogated for alternative splicing analysis, and the resulting data sets were correlated to identify pathways subject to post-transcriptional regulation. We discover that BRD4 regulates alternative splicing of key genes, including Interferon-related Developmental Regulator 1 (IFRD1) and X-Box Binding Protein 1 (XBP1), related to the innate immune response and the unfolded protein response, respectively. These findings extend the actions of BRD4 in control of post-transcriptional RNA processing.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:58:35.573.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Morgan Mann
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-03 01:00:06	ID requested
1	2023-06-12 21:21:01	announced
⏵ 2	2023-11-14 08:58:36	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Human, Epithelial, LC-MS, Airway, diaPASEF

Allan R. Brasier
contact affiliation	Institute for Clinical and Translational Research, University of Wisconsin - Madison
contact email	abrasier@wisc.edu
lab head
Morgan Mann
contact affiliation	UW-Madison
contact email	mwmann@wisc.edu
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/2023/06/PXD039212

PRIDE project URI

• PRIDE
  1. PXD039212
     1. Label: PRIDE project
     2. Name: Proteomic Characterization of human small airway epithelial cells (hSAECs) in the context of respiratory syncytial virus infection and BRD4 inhibition.