PXD044801-2

PXD044801 is an original dataset announced via ProteomeXchange.

Title	Label free-DDA nano-LC/MS/MS analysis of Human Mesenteric lymph collected from Inflammatory Bowel Disease (IBD) subjects.
Description	Compromise of the intestinal barrier have been associated with a series of inflammatory conditions where the routine controls nutrient absorption and pathogens exclusion is lost to different degrees. The intestinal epithelial cells form a barrier of selective permeability which protects from invasion by the normal bacteria present in the gut. When the barrier is compromised, bacteria and their products can attack the cells and cause inflammation, which can (in severe cases) cause sepsis. Mesenteric lymph nodes play a crucial role in the immune response and are of particular importance in the study of Inflammatory Bowel Disease (IBD) patients due to their involvement in the disease process. To assess the efficiency of gut immune barrier, we collected the pre-nodal lymph from Inflammatory Bowel Disease (IBD) subjects and performed a comprehensive proteomic analysis. The current study is complementary extension of the proteomics signature found in DSS-induced colitis mouse model, providing an insight in the lymph composition, and associated biochemical changes, in the set of samples (n=6) recruited from the Inflammatory Bowel Disease (IBD), subjects undergoing intestinal resection. Following bottom-up analysis, the enrichment analysis – GO and Ingenuity pathway analysis (IPA) analysis identified several pathways pointing towards a damaging phenotype.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:53:35.003.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD044801
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	ZOHAIB KHAN
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-23 08:28:15	ID requested
1	2024-08-09 02:57:33	announced
⏵ 2	2024-10-22 06:53:38	announced	2024-10-22: Updated project metadata.

10.1016/j.celrep.2024.114311;

10.6019/PXD044801;

Nanaware PP, Khan ZN, Clement CC, Shetty M, Mota I, Seltzer ES, Dzieciatkowska M, Gamboni F, D'Alessandro A, Ng C, Nagayama M, Lichti CF, Soni RK, Jacob B Geri, Matei I, Lyden D, Longman R, Lu TT, Wan X, Unanue ER, Stern LJ, Santambrogio L, Role of the afferent lymph as an immunological conduit to analyze tissue antigenic and inflammatory load. Cell Rep, 43(6):114311(2024) [pubmed]

submitter keyword: Lable free-DDA, Lymphatics, Inflammatory Bowel Disease,Lymph

Laura Santambrogio
contact affiliation	Radiation Oncology; Weill Cornell medicine College; 1300 York Avenue; 10065, New York, New York, USA
contact email	las4011@med.cornell.edu
lab head
ZOHAIB KHAN
contact affiliation	WEILL CORNELL MEDICINE
contact email	znk4001@med.cornell.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/2024/08/PXD044801

PRIDE project URI

• PRIDE
  1. PXD044801
     1. Label: PRIDE project
     2. Name: Label free-DDA nano-LC/MS/MS analysis of Human Mesenteric lymph collected from Inflammatory Bowel Disease (IBD) subjects.