PXD024324 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | A urine storage protocol that is feasible with at home self-sampling for extracellular vesicle proteomics |
Description | Urine is a non-invasive biofluid for the identification of biomarkers to detect disease. In particular extracellular vesicles (EVs) have gained increased interest as a biomarker source, because the molecular content is protected against degradation. Clinical implementation on a daily basis requires protocols that inevitably includes short-term storage of the clinical samples, especially when samples are collected at home. However, little is known about the effect of delayed processing on the urinary EVs and their proteome. In the current study, we evaluated two different storage protocols. First, urine stored at 4˚C without any preservative, and second, a protocol compatible with at-home collection, urine with 40 mM EDTA stored at room temperature. For both conditions it was determined whether storage for 0, 2, 4 and 8 days leads to a change in the global urinary EV proteome profile using proteomics based on data-independent acquisition mass spectrometry. We show that EDTA does not affect the global proteome. Remarkably, the EV proteome was stable in both urine stored up to a week at room temperature with EDTA and in urine stored at 4˚C. These findings open up biomarker studies in urine collected via self-sampling. |
HostingRepository | PRIDE |
AnnounceDate | 2022-05-04 |
AnnouncementXML | Submission_2022-05-04_05:05:05.944.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Sander Piersma |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-02-23 06:55:50 | ID requested | |
⏵ 1 | 2022-05-04 05:05:06 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: urine, extracellular vesicles, quantification, biomarker, urine storage, bio-banking, DIA proteomics |
Contact List
Connie Ramona Jimenez |
contact affiliation | Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands |
contact email | c.jimenez@vumc.nl |
lab head | |
Sander Piersma |
contact affiliation | Amsterdam UMC |
contact email | s.piersma@amsterdamumc.nl |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
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[ - ]
- PRIDE
- PXD024324
- Label: PRIDE project
- Name: A urine storage protocol that is feasible with at home self-sampling for extracellular vesicle proteomics