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PXD062507

PXD062507 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteomic analysis of the esophageal epithelium reveals key features of eosinophilic esophagitis pathophysiology
DescriptionBackground: Eosinophilic esophagitis (EoE) is a chronic non-IgE-mediated allergic disease of the esophagus. An unbiased proteomics approach was performed to investigate pathophysiological changes in esophageal epithelium. Additionally, an RNAseq-based transcriptomic analysis in paired samples was also carried out. Methods: Total proteins were purified from esophageal endoscopic biopsies in a cohort of adult EoE patients (n = 25) and healthy esophagus controls (n = 10). Differentially accumulated (DA) proteins in EoE patients compared to control tissues were characterized to identify altered biological processes and signaling pathways. Results were also compared with a quantitative proteome dataset of the human esophageal mucosa. Next, results were contrasted with those obtained after RNAseq analysis in paired samples. Finally, we matched up protein expression with two EoE-specific mRNA panels (EDP and Eso-EoE panel). Results: A total of 1667 proteins were identified, of which 363 were DA in EoE. RNA sequencing in paired samples identified 1993 differentially expressed (DE) genes. Total RNA and protein levels positively correlated, especially in DE mRNA-proteins pairs. Pathway analysis of these proteins in EoE showed alterations in immune and inflammatory responses for the upregulated proteins, and in epithelial differentiation, cornification and keratinization in those downregulated. Interestingly, a set of DA proteins, including eosinophil-related and secreted proteins, were not detected at the mRNA level. Protein expression positively correlated with EDP and Eso-EoE, and corresponded with the most abundant proteins of the human esophageal proteome. Conclusions: We unraveled for the first time key proteomic features involved in EoE pathogenesis. An integrative analysis of transcriptomic and proteomic datasets provides a deeper insight than transcriptomic alone into understanding complex disease mechanisms.
HostingRepositoryPRIDE
AnnounceDate2025-04-11
AnnouncementXMLSubmission_2025-04-11_09:26:03.127.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterPedro Majano
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListNo PTMs are included in the dataset
InstrumenttimsTOF Pro
Dataset History
RevisionDatetimeStatusChangeLog Entry
02025-04-02 02:31:37ID requested
12025-04-11 09:26:03announced
Publication List
10.1111/ALL.15779;
Keyword List
submitter keyword: basic mechanisms
eosinophilic esophagitis
epithelium
proteomic
Contact List
Pedro L.Majano
contact affiliationInstituto investigación sanitaria la Princesa
contact emailpedro.majano@salud.madrid.org
lab head
Pedro Majano
contact affiliationInstituto Investigacion Sanitaria Hospital Universitario de la Princesa
contact emailpedro.majano@salud.madrid.org
dataset submitter
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Dataset FTP location
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