PXD014438

PXD014438 is an original dataset announced via ProteomeXchange.

Title	Novel Protein Pathways in Development and Progression of Pulmonary Sarcoidosis.
Description	Sarcoidosis is a disease that affects multiple organ systems, with lung disease seen commonly and is the most frequent cause of sarcoidosis-related mortality. We investigated to compare protein expression in the lung from both bronchoalveolar lavage fluid (BAL) cells and fluid (BALF) in newly diagnosed patients with sarcoidosis. Mass spectral data acquisition was conducted on an Orbitrap Fusion instrument in data-dependent mode using either label-free (BALF) or label-based (intracellular) approach. We identified 4,306 high confidence intracellular proteins (probability >99%) with 272 differentially expressed proteins controlling for an FDR  5%. The protein map to several known canonical pathways including phagosome maturation, clathrin-mediated endocytic signaling, NRF-2 mediated oxidant stress response, The examination of BALF identified 1,192 proteins, xxx and xxx protein with differential expression between controls vs. sarcoidosis and progressive vs. non-progressive sarcoidosis respectively. Several of the proteins identified mapping to the differentially expressed proteins were also detected in the BALF.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:26:14.755.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kevin Viken
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-01 01:39:51	ID requested
1	2021-09-08 11:09:58	announced
⏵ 2	2024-10-22 05:26:15	announced	2024-10-22: Updated project metadata.

Bhargava M, Viken KJ, Barkes B, Griffin TJ, Gillespie M, Jagtap PD, Sajulga R, Peterson EJ, Dincer HE, Li L, Restrepo CI, O'Connor BP, Fingerlin TE, Perlman DM, Maier LA, Novel protein pathways in development and progression of pulmonary sarcoidosis. Sci Rep, 10(1):13282(2020) [pubmed]

10.1038/s41598-020-69281-8;

submitter keyword: Sarcoidosis proteomics protein networks novel mechanism biomarkers BALF intracellular proteins

Maneesh Bhargava
contact affiliation	University of Minnesota, Medical School, Associate Professor of Medicine, Division of Pulmonary, Allergy, Critical Care and Sleep Medicine
contact email	bharg005@umn.edu
lab head
Kevin Viken
contact affiliation	University of Minnesota
contact email	kviken@umn.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/2021/09/PXD014438

PRIDE project URI

• PRIDE
  1. PXD014438
     1. Label: PRIDE project
     2. Name: Novel Protein Pathways in Development and Progression of Pulmonary Sarcoidosis.