PXD060725

PXD060725 is an original dataset announced via ProteomeXchange.

Title	EDU-IP-MS of ecDNA positive and negative human COLO320, HEK293T and U251 cell lines
Description	In this study, we established ecDNA-containing cell models by either transfecting synthetic circular DNA or excising endogenous chromosomal DNA. We found that ecDNA can be stable maintained in these cell models. By identifying proteins on nascent DNA, we found DNA damage repair pathway was significantly enriched in ecDNA-containing cells. ecDNA can activate DNA damage response. Further evidence show that TOP2B and LIG3. The association of ecDNA replication with cell proliferation and DNA damage response was explored by comprehensive profiling and analysis. Utilizing EdU (5-ethynyl-2’-deoxyuridine)-immunoprecipitation-mass spectrometry (EdU-IP-MS), we identified critical regulators involved in ecDNA replication and examined their functional roles in cancer cell DNA damage response and proliferation.
HostingRepository	PRIDE
AnnounceDate	2025-04-18
AnnouncementXML	Submission_2025-04-18_05:19:24.481.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jiaqi Zhou
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-12 08:09:59	ID requested
⏵ 1	2025-04-18 05:19:24	announced

Dataset with its publication pending

submitter keyword: EdU-IP-MS

Jiaqi Zhou
contact affiliation	SIAT
contact email	jq.zhou@siat.ac.cn
lab head
Jiaqi Zhou
contact affiliation	Shenzhen Institute of Advanced Technology
contact email	jq.zhou@siat.ac.cn
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/2025/04/PXD060725

PRIDE project URI

• PRIDE
  1. PXD060725
     1. Label: PRIDE project
     2. Name: EDU-IP-MS of ecDNA positive and negative human COLO320, HEK293T and U251 cell lines