MassIVE MSV000098395

Imported Reanalysis Dataset Public PXD028172

Proteomics analysis of plasma-derived exosomes extracted by thrombin pre-treated ExoQuick isolation

Subscribe Comment Reanalyze Spectra Add Reanalysis

Description

Exosomes are very small nanosized, membrane-bound vesicles, ranging from 30 to 150 nm in size, are originated and released from a variety of cells from body fluids including blood plasma. The isolation of pure exosome from blood plasma is challenging since it is rich in various contaminants from diverse origins. We applied ExoQuick with thrombin for purification of plasma-derived exosome from healthy individual. Immunoassays confirmed the presence of proteins that are classically associated to exosomes (CD9, CD63 and CD81) but these proteins have not been detected by MS. We found several common proteins enriched in our data set compared with plasma-derived exosome markers from databases. Moreover, proteomics analysis and external database integration revealed an enrichment of those extracellular vesicles. The Gene Ontology data analyses determined the presence of proteins that are involved in catalytic, transporter functions and protein metabolism activities. These results allowed the detection of tetraspanin i.e. TSPAN14 in plasma where proteins were undetected by other studies. Furthermore, this study confirmed the detection of CD5L and LGALS3BP proteins. Although the undouble presence of plasma contaminants hamper MS analysis, still proteins with biomarker potential (TSPAN14, CD5L and LGALS3BP) are accessible in a reasonable sample processing frame that outperforms high-purity focused extraction methods e.g. SEC. The study suggests the use of TSPAN14, CD5L and LGALS3BP as new exosomal markers of plasma-derived exosomes in quantitative proteomics analysis. [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Human ; Exoquick ; Plasma-derived exosomes ; DatasetType:Proteomics

Contact

Principal Investigators:
(in alphabetical order) 		Stefan Kalkhof, Department Preclinical Development and Validation, Unit Proteomics, Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany, N/A
Submitting User: ccms
Number of Files:
Total Size:
Spectra:
Subscribers:
 
Owner Reanalyses
Experimental Design
    Conditions:
    Biological Replicates:
    Technical Replicates:
 
Identification Results
    Proteins (Human, Remapped):
    Proteins (Reported):
    Peptides:
    Variant Peptides:
    PSMs:
 
Quantification Results
    Differential Proteins:
    Quantified Proteins:
 
Browse Dataset Files
 
FTP Download Link (click to copy):

Species

Instrument

Modifications

- Dataset Reanalyses

+ Dataset History

Click here to queue conversion of this dataset's submitted spectrum files to open formats (e.g. mzML). This process may take some time.

When complete, the converted files will be available in the "ccms_peak" subdirectory of the dataset's FTP space (accessible via the "FTP Download" link to the right).
Number of distinct conditions across all analyses (original submission and reanalyses) associated with this dataset.

Distinct condition labels are counted across all files submitted in the "Metadata" category having a "Condition" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

Distinct replicate labels are counted across all files submitted in the "Metadata" category having a "BioReplicate" or "Replicate" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

The technical replicate count is defined as the maximum number of times any one distinct combination of condition and biological replicate was analyzed across all files submitted in the "Metadata" category. In the case of fractionated experiments, only the first fraction is considered.

"N/A" means no results of this type were submitted.
Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

"N/A" means no results of this type were submitted.
Number of distinct protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct unmodified peptide sequences reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins quantified across all analyses (original submission and reanalyses) associated with this dataset.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

A protein is differentially abundant if its change in abundance across conditions is found to be statistically significant with an adjusted p-value <= 0.05 and lists no issues associated with statistical tests for differential abundance.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
This dataset may not contain all raw spectra data as originally deposited in PRIDE. It has been imported to MassIVE for reanalysis purposes, so its spectra data here may consist solely of processed peak lists suitable for reanalysis with most software.