PXD057521-1

PXD057521 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis reveals chromatin remodeling and RNA processing as potential therapeutical targets in Neuroblastoma
Description	Neuroblastoma (NB) is the most common solid tumor in children, characterized by high recurrence rates, drug resistance, and significant mortality. In this study, we analyzed the proteomic profiles of NB tissue samples alongside other pathological categories, including ganglioneuroma (GN) and ganglioneuroblastoma (GNB). Our findings reveal that pathways associated with the cell cycle and DNA replication are significantly upregulated in NB, while oxidative phosphorylation, pyruvate metabolism, and the TCA cycle are notably downregulated compared to GNB and GN. Using weighted gene co-expression network analysis (WGCNA), we identified a core prognostic gene model strongly associated with the unfavorable phenotype of NB, primarily related to RNA processing and chromatin remodeling. Notably, ALYREF and SMARCA4 emerged as potential prognostic biomarkers for NB. Furthermore, by mapping our core prognostic gene models onto drug-perturbed transcriptome profiles from the L1000FWD and CMap databases, we identified five promising repurposing drugs for NB. Among these, Mocetinostat and Clofarabine were validated as effective treatments in two NB cell lines, offering valuable insights for the development of novel targeted therapies in neuroblastoma.
HostingRepository	PRIDE
AnnounceDate	2025-05-07
AnnouncementXML	Submission_2025-05-07_05:00:34.057.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zan Liu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2024-11-05 01:01:50	ID requested
⏵ 1	2025-05-07 05:00:35	announced

Liu Z, Zhao Z, Xie L, Xiao Z, Li M, Li Y, Luo T, Proteomic analysis reveals chromatin remodeling as a potential therapeutical target in neuroblastoma. J Transl Med, 23(1):234(2025) [pubmed]

10.1186/s12967-025-06298-5;

submitter keyword: RNA processing, proteomics, chromatin remodeling,neuroblastoma

Zan Liu
contact affiliation	The Affiliated Children's Hospital Of Xiangya School of Medicine ,Central South University（Hunan children’s hospital)
contact email	liujt8923@aliyun.com
lab head
Zan Liu
contact affiliation	Department of Pediatric Surgery, The Affiliated Children's Hospital Of Xiangya School of Medicine ,Central South University（Hunan children’s hospital)
contact email	liujt8923@aliyun.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/2025/05/PXD057521

PRIDE project URI

• PRIDE
  1. PXD057521
     1. Label: PRIDE project
     2. Name: Proteomic analysis reveals chromatin remodeling and RNA processing as potential therapeutical targets in Neuroblastoma