PXD036465

PXD036465 is an original dataset announced via ProteomeXchange.

Title	The UIP honeycomb airways are defined by deranged ciliogenesis and elevated mucin biogenesis
Description	Honeycombing (HC) is a histological pattern consistent with Usual Interstitial Pneumonia (UIP). HC refers to cystic airways (HC airways) located at sites of dense fibrosis with marked mucus accumulation. Utilizing laser capture microdissection coupled mass spectrometry (LCM-MS), we interrogate the fibrotic HC airway cells and fibrotic uninvolved airway cells (morphologically intact) in 10 UIP specimens; 6 non-fibrotic airway cell specimens served as controls. Furthermore, we perform LCM-MS on the mucus found in 6 UIP and 6 mucinous adenocarcinoma (MA) specimens. The mass spectrometry data were subject to a qualitative and quantitative analysis, and validated by immunohistochemistry. Surprisingly, fibrotic uninvolved and HC airway cells share a similar protein profile, both showing deregulation of SLITs and ROBO pathway as the strongest category. We find that BPIFB1 is the most significantly increased secretome-associated protein in UIP, whereas MUC5AC is the most significantly increased in MA. We conclude that spatial proteomics demonstrates that the fibrotic uninvolved airway cells are abnormal. In addition, fibrotic HC airway cells are enriched in mucin biogenesis proteins and show a marked derangement in proteins essential for ciliogenesis. This unbiased spatial proteomic approach will generate novel and testable hypothesis to decipher fibrosis progression.
HostingRepository	PRIDE
AnnounceDate	2025-03-25
AnnouncementXML	Submission_2025-03-25_12:17:48.295.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Craig Lawless
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-02 06:26:24	ID requested
⏵ 1	2025-03-25 12:17:48	announced

10.1186/S12931-023-02400-X;

submitter keyword: UIP, Human, laser capture, fibrosis,Mucus, adenocarcinoma

Jeremy Herrera
contact affiliation	The Wellcome Centre for Cell-Matrix Research, University of Manchester, Manchester, UK
contact email	Jeremy.Herrera@manchester.ac.uk
lab head
Craig Lawless
contact affiliation	University of Manchester
contact email	craig.lawless@manchester.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD036465
     1. Label: PRIDE project
     2. Name: The UIP honeycomb airways are defined by deranged ciliogenesis and elevated mucin biogenesis