PXD045956

PXD045956 is an original dataset announced via ProteomeXchange.

Title	DIA-enabled discovery of alternative proteins (AltProts) in mouse heart development
Description	In this project, we conducted an evaluation of mass spectrometry methods using mouse heart and HCT116 cell samples. The results demonstrated that the data-independent acquisition (DIA) approach outperformed data-dependent acquisition (DDA) in the identification of Altprot and canonical proteins. Subsequently, we assessed several different DIA library building methods, including traditional DDA-based library building, gas-phase fractionation(GPF) library building, and machine learning-based prediction library building. Notably, the traditional DDA library building method exhibited a higher likelihood of false positive identifications. Furthermore, we applied the aforementioned mass spectrometry methods to investigate the process of mouse heart development. Through this analysis, we identified a subset of Altprots, including ASDURF, which may potentially play crucial roles in heart development. These findings serve as a fundamental basis for future exploration and investigation of Altprot in this context.
HostingRepository	PRIDE
AnnounceDate	2025-01-17
AnnouncementXML	Submission_2025-01-17_04:41:04.308.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yuanliang Zhang
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	2023-10-07 02:18:25	ID requested
⏵ 1	2025-01-17 04:41:04	announced

10.1021/ACS.ANALCHEM.4C02924;

submitter keyword: AltORFs

Mouse Heart development

Mass spectroemtry

Qian Zhao
contact affiliation	State Key Laboratory of Chemical Biology and Drug Discovery, Department of Applied Biology and Chemical Technology, The Hong Kong Polytechnic University, Hong Kong, SAR, China
contact email	q.zhao@polyu.edu.hk
lab head
Yuanliang Zhang
contact affiliation	The Hong Kong Polytechnic University
contact email	yuanliang.zhang@connect.polyu.hk
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/2025/01/PXD045956

PRIDE project URI

• PRIDE
  1. PXD045956
     1. Label: PRIDE project
     2. Name: DIA-enabled discovery of alternative proteins (AltProts) in mouse heart development