PXD036748 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Towards optimised extracellular vesicle proteomics from cerebrospinal fluid |
Description | The proteomic profile of extracellular vesicles (EVs) from cerebrospinal fluid (CSF) can reveal novel biomarkers for diseases of the brain. Here, we validate an ultrafiltration combined with size-exclusion chromatography (UF-SEC) method for isolation of EVs from canine CSF and probed the effect of starting volume for the EV proteomics profile. Using proteomics, SEC fractions 3-5 were compared and enrichment of EV markers in fraction 3 was detected, whereas fractions 4-5 contained more apolipoproteins. Lastly, we compared starting volumes of pooled CSF (6ml, 3ml, 1ml, and 0.5ml) to evaluate the effect on the proteomic profile. A total of 180 proteins was shared regardless of the starting volume. With a 0.5ml starting volume, 743 ± 77 or 345 ± 88 proteins were identified depending on the MaxQuant settings (with and without ‘match between runs’ active). The results confirm that UF-SEC effectively isolates CSF EVs and that EV proteomic analysis can be performed from 0.5ml of canine CSF. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_05:56:24.458.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Tuula Nyman |
SpeciesList | scientific name: Canis familiaris (Dog) (Canis lupus familiaris); NCBI TaxID: 9615; |
ModificationList | No PTMs are included in the dataset |
Instrument | timsTOF fleX |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-09-14 14:27:51 | ID requested | |
1 | 2023-07-20 11:34:54 | announced | |
2 | 2023-11-14 09:03:25 | announced | 2023-11-14: Updated project metadata. |
⏵ 3 | 2024-10-22 05:56:27 | announced | 2024-10-22: Updated project metadata. |
Publication List
Kangas P, Nyman TA, Mets, ä, honkala L, Burns C, Tempest R, Williams T, Karttunen J, Jokinen TS, Towards optimised extracellular vesicle proteomics from cerebrospinal fluid. Sci Rep, 13(1):9564(2023) [pubmed] |
10.1038/s41598-023-36706-z; |
Keyword List
submitter keyword: proteomics, ultrafiltration combined with size-exclusion chromatography, extracellular vesicles,cerebrospinal fluid |
Contact List
Tuula Nyman |
contact affiliation | Head of Proteomics |
contact email | tuula.nyman@medisin.uio.no |
lab head | |
Tuula Nyman |
contact affiliation | University of Oslo |
contact email | tuula.nyman@medisin.uio.no |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD036748
- Label: PRIDE project
- Name: Towards optimised extracellular vesicle proteomics from cerebrospinal fluid