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PXD036748

PXD036748 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleTowards optimised extracellular vesicle proteomics from cerebrospinal fluid
DescriptionThe 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.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_05:56:24.458.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterTuula Nyman
SpeciesList scientific name: Canis familiaris (Dog) (Canis lupus familiaris); NCBI TaxID: 9615;
ModificationListNo PTMs are included in the dataset
InstrumenttimsTOF fleX
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-09-14 14:27:51ID requested
12023-07-20 11:34:54announced
22023-11-14 09:03:25announced2023-11-14: Updated project metadata.
32024-10-22 05:56:27announced2024-10-22: 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 affiliationHead of Proteomics
contact emailtuula.nyman@medisin.uio.no
lab head
Tuula Nyman
contact affiliationUniversity of Oslo
contact emailtuula.nyman@medisin.uio.no
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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