PXD076477

PXD076477 is an original dataset announced via ProteomeXchange.

Title	ProjDIA: Fragment-Bin Projection Scoring and Calibrated Confidence for Direct Infusion DIA Proteomics
Description	Direct-infusion shotgun proteome analysis (DI-SPA) increases throughput by removing liquid chromatography, but the resulting DIA spectra are highly multiplexed and difficult to interpret. This dataset was generated to evaluate ProjDIA, a computational workflow for direct-infusion DIA proteomics. ProjDIA uses fragment-bin projection scoring, confidence-guided two-pass mass-error recalibration, monotone q-value reporting, and semi-supervised rescoring to improve peptide and protein identification confidence. The dataset includes benchmarking experiments across MS2 resolution and sample load, replicate-series analyses, species-entrapment controls for external error assessment, and a three-species mixture for label-free quantification evaluation. The submission contains the raw mass spectrometry files together with processed search and result files used to support the analyses reported in the study.
HostingRepository	PRIDE
AnnounceDate	2026-04-02
AnnouncementXML	Submission_2026-04-02_13:05:44.076.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Herbi Yuliantoro
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2026-04-01 18:00:42	ID requested
⏵ 1	2026-04-02 13:05:44	announced

Dataset with its publication pending

submitter keyword: MCF7, proteomics, ProjDIA,Direct infusion, DIA, species entrapment, DI-SPA, HeLa, label-free quantification

Peng Li
contact affiliation	Lehigh University
contact email	pel624@lehigh.edu
lab head
Herbi Yuliantoro
contact affiliation	Lehigh University
contact email	hey325@lehigh.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/2026/04/PXD076477

PRIDE project URI

• PRIDE
  1. PXD076477
     1. Label: PRIDE project
     2. Name: ProjDIA: Fragment-Bin Projection Scoring and Calibrated Confidence for Direct Infusion DIA Proteomics