PXD003595

PXD003595 is an original dataset announced via ProteomeXchange.

Title	Characterization of the human urinary proteome and peptidome
Description	Urine represents an ideal source of clinically relevant biomarkers since it contains a large number of proteins and low molecular weight peptides. Characterization of the normal urinary proteome and peptidome can serve as a reference for disease and can aid in biomarker discovery. Proteomic and peptidomic analysis of urine can also provide insight into normal physiology and disease pathology, especially for urogenital diseases. We developed an integrated proteomic and peptidomic analytical protocol for normal urine. We employed ultrafiltration to separate protein and peptide fractions, which were analyzed separately using liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) on the Q-Exactive mass spectrometer. By analyzing six urines from healthy individuals, we identified 1754 proteins by proteomic analysis and 4543 endogenous peptides, arising from 566 proteins by peptidomic analysis. Overall, we identified 2091 non-redundant proteins by this integrated approach. In silico protease activity analysis indicated that metalloproteases are predominantly involved in the generation of the endogenous peptide signature. In addition, a number of proteins that were detected in normal urine have previously been implicated in various urological malignancies, including bladder cancer and renal cell carcinoma. Thus, this study can provide a reference for assessing alterations in cancer-specific biomarkers.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:28:15.825.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ashley Di Meo
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-02-09 02:23:56	ID requested
1	2016-07-12 03:41:29	announced
⏵ 2	2024-10-22 04:28:23	announced	2024-10-22: Updated project metadata.

10.1515/cclm-2016-0390;

Di Meo A, Batruch I, Yousef AG, Pasic MD, Diamandis EP, Yousef GM, An integrated proteomic and peptidomic assessment of the normal human urinome. Clin Chem Lab Med, 55(2):237-247(2017) [pubmed]

curator keyword: Biomedical

submitter keyword: Human, peptidomics, proteomics, Peptide sequence alignment, protease activity analysis, urinary proteome, urinary peptidome, Urine, LC-MS/MS

Eleftherios P. Diamandis
contact affiliation	Section Head of Clinical Biochemistry, Department of Pathology and Laboratory Medicine Mount Sinai Hospital
contact email	ediamandis@mtsinai.on.ca
lab head
Ashley Di Meo
contact affiliation	University of Toronto
contact email	ashley.dimeo@mail.utoronto.ca
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/2016/07/PXD003595

PRIDE project URI

• PRIDE
  1. PXD003595
     1. Label: PRIDE project
     2. Name: Characterization of the human urinary proteome and peptidome