PXD006814 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Optimization of quantitative proteomic analysis of clots |
Description | The aim of our study was to optimize quantitative proteomic analysis of fibrin clots prepared ex vivo from citrated plasma of the peripheral blood drawn from patients with prior venous thromboembolism. We used a multiple enzyme digestion filter aided sample preparation (MED FASP) method combined with LC-MS/MS analysis performed on a Proxeon Easy-nLC System coupled to Q Exactive HF mass spectrometer. We also evaluated the impact of peptide fractionation with pipet-tip strong anion exchange (SAX) method on the obtained results. Our proteomic approach revealed >500 proteins repeatedly identified in the plasma fibrin clots from patients with venous thromboembolism. The multienzyme digestion (MED) FASP method using three different enzymes: LysC, trypsin and chymotrypsin increased the number of identified peptides and proteins and their sequence coverage as compared to a single and double step digestion. Peptide fractionation with SAX protocol slightly increased the depth of proteomic analyses, but also extended the time needed for sample analysis with LC-MS/MS. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_04:38:29.133.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Jacek Wisniewski |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-06-27 07:12:45 | ID requested | |
1 | 2017-12-08 00:43:59 | announced | |
⏵ 2 | 2024-10-22 04:38:33 | announced | 2024-10-22: Updated project metadata. |
Publication List
10.1186/s12014-017-9173-x; |
Stachowicz A, Siudut J, Suski M, Olszanecki R, Korbut R, Undas A, Wi, ś, niewski JR, Optimization of quantitative proteomic analysis of clots generated from plasma of patients with venous thromboembolism. Clin Proteomics, 14():38(2017) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: proteomics, venous thromboembolism, clot, MED FASP |
Contact List
Jacek R Wisniewski |
contact affiliation | Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany |
contact email | jwisniew@biochem.mpg.de |
lab head | |
Jacek Wisniewski |
contact affiliation | Proteomics |
contact email | jwisniew@biochem.mpg.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD006814
- Label: PRIDE project
- Name: Optimization of quantitative proteomic analysis of clots