PXD071312-1

PXD071312 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiling of scaffold-guided bone healing in type 2 diabetes rat model with critical-sized bone defect
Description	Type 2 diabetes mellitus significantly impairs bone healing, with delayed regeneration observed in over 60% of diabetic patients. This study investigated the molecular mechanisms underlying diabetes-associated compromised regeneration using time-resolved proteome profiling of critical-sized femoral defects in diabetic (Lepr-/-) and non-diabetic LundMetS rats treated with polycaprolactone scaffolds. Explanted regenerated callus and contralateral bone tissue were analyzed at 21- and 42-days post-surgery using TMT-based quantitative proteomics and functional enrichment analysis. Deep proteome coverage identified 4,384 proteins, revealing significantly reduced extracellular matrix proteins and elevated inflammatory proteins in diabetic defects at 42 days. A distinct mast cell protease cluster emerged as a novel mechanism, with diabetic callus containing 2.5-fold more mast cells and elevated tissue histamine. The findings demonstrate that diabetes converts physiological transient inflammatory processes into pathologically sustained networks through mast cell-neutrophil crosstalk, creating a self-reinforcing catabolic niche that prevents inflammatory resolution and matrix maturation.
HostingRepository	PRIDE
AnnounceDate	2026-04-16
AnnouncementXML	Submission_2026-04-16_03:32:01.987.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Vivien Wiltzsch
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: NEWT:10116;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-11-27 04:18:12	ID requested
⏵ 1	2026-04-16 03:32:03	announced
2	2026-04-21 08:00:25	announced	2026-04-21: Updated project metadata.

Wiltzsch V, Schmidt JR, Adamowicz K, Lauterbach T, Lehmann J, Baumbach J, Laske T, Kalkhof S, Systematic Comparison of Bone Proteome Extraction Methods to Allow for Integrated Proteomics-Metabolomics Correlation. J Proteome Res, 24(9):4362-4376(2025) [pubmed]

10.1021/acs.jproteome.4c01060;

submitter keyword: None

Stefan Kalkhof
contact affiliation	1) Department Preclinical Development and Validation, Fraunhofer Institute for Cell Therapy and Immunology IZI, Leipzig, Germany; 2) Institute for Bioanalysis, University of Applied Science Coburg, Coburg, Germany
contact email	stefan.kalkhof@fraunhofer.izi.de
lab head
Vivien Wiltzsch
contact affiliation	Department Preclinical Development and Validation, Fraunhofer Institute for Cell Therapy and Immunology IZI, Leipzig, Germany
contact email	vivien.wiltzsch@izi.fraunhofer.de
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/PXD071312

PRIDE project URI

• PRIDE
  1. PXD071312
     1. Label: PRIDE project
     2. Name: Proteomic profiling of scaffold-guided bone healing in type 2 diabetes rat model with critical-sized bone defect