PXD070849

PXD070849 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis of human dentin matrix extracts by peptide-level high-pH reverse-phase fractionation
Description	Proteomics research has increasingly focused on human cells, tissues, and fluids; however, comprehensive data regarding dental tissues remain limited. Dentin, a mineralized component of the tooth, contains structural proteins and bioactive molecules that, upon release, can modulate pulp cell activity and facilitate regeneration. Therefore, an understanding of the protein composition of dentin is of considerable importance. Previous studies have reported a limited number of proteins, and technical difficulties have often hindered replication. Furthermore, traditional extraction methods rely on strong acids, which are not clinically relevant. In this technical note, we introduce a workflow that combines EDTA-based dentin extraction under clinically relevant conditions with peptide-level fractionation using high-pH reverse-phase chromatography. This approach was compared against unfractionated samples (control), protein-level fractionation via SDS-PAGE, and peptide-level fractionation utilizing strong cation exchange (SCX), all followed by LC-MS/MS analysis. This workflow facilitated the identification of 514 proteins, compared with 238 (unfractionated control), 428 (SDS-PAGE), and 193 (SCX). High-pH reverse-phase chromatography contributed 217 unique identifications, surpassing the number of unique fractions identified through the other techniques. Although this methodology has been utilized in other protein systems, it has not previously been applied to dentin matrix extracts and represents a promising approach for enhancing the comprehensiveness of protein discovery.
HostingRepository	PRIDE
AnnounceDate	2026-03-23
AnnouncementXML	Submission_2026-03-22_18:06:52.126.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bushra Gull
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-11-17 11:53:55	ID requested
⏵ 1	2026-03-22 18:06:53	announced

10.1021/acs.jproteome.5c01067;

Khalil M, Gull B, Alhimairi S, Giddey AD, Jamal M, Proteomic Analysis of Human Dentine Matrix Extracts by Peptide-Level High-pH Reversed-Phase Fractionation. J Proteome Res, ():(2026) [pubmed]

submitter keyword: dentin

dentin matrix

proteomics

extracellular matrix

mass spectrometry

regenerative endodontics

Mohamed Jamal
contact affiliation	Hamdan Bin Mohammed College of Dental Medicine, Mohammed Bin Rashid University of Medicine and Health Sciences, Dubai Health, Dubai, UAE
contact email	mohamed.jamal@dubaihealth.ae
lab head
Bushra Gull
contact affiliation	Mohammed Bin Rashid University of Medicine and Health Sciences
contact email	bushra.gull@dubaihealth.ae
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/2026/03/PXD070849

PRIDE project URI

• PRIDE
  1. PXD070849
     1. Label: PRIDE project
     2. Name: Proteomic analysis of human dentin matrix extracts by peptide-level high-pH reverse-phase fractionation