PXD040205 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Fast proteomics with dia-PASEF and analytical flow-rate chromatography |
Description | The presented approach is a combination of analytical flow rate chromatography with ion mobility separation of peptide ions, data-independent acquisition, and raw data processing using the DIA-NN software suite, to conduct fast, low-cost proteomic experiments that only require moderate sample amounts. The present dataset contains a series of benchmarks. Specifically, a dilution series of a K562 digest standard acquired using 5-minute and 3-minute chromatographic gradients, as well as a mixed-species human–E.coli benchmark for quantitative performance. We further demonstrate the application of the proposed approach to the analysis of plasma proteomes of COVID-19 patients, using a 3-minute gradient acquisition on a dual-column liquid chromatography system at a throughput of 398 samples/day.
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HostingRepository | PRIDE |
AnnounceDate | 2023-07-03 |
AnnouncementXML | Submission_2023-07-03_14:06:54.435.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | LukaszSzyrwiel |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | timsTOF Pro |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-02-16 14:52:21 | ID requested | |
⏵ 1 | 2023-07-03 14:06:55 | announced | |
2 | 2023-11-14 09:02:08 | announced | 2023-11-14: Updated project metadata. |
Publication List
Szyrwiel L, Gille C, M, ü, lleder M, Demichev V, Ralser M, Fast proteomics with dia-PASEF and analytical flow-rate chromatography. Proteomics, 24(1-2):e2300100(2024) [pubmed] |
Keyword List
submitter keyword: short gradient, dia-PASEF, TimsTOF, fast methods,Plasma proteomics, high-throughput, COVID-19 |
Contact List
prof. MarkusRalser |
contact affiliation | 1)Department of Biochemistry, Charité – Universitätsmedizin Berlin, Berlin, Germany. 2)The Wellcome Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, UK 3)Max Planck Institute for Molecular Genetics, Berlin, Germany |
contact email | markus.ralser@charite.de |
lab head | |
LukaszSzyrwiel |
contact affiliation | Charité - Universitätsmedizin Berlin Laboratory "Biochemistry und System biology of Metabolism" |
contact email | l.szyrwiel@gmail.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD040205
- Label: PRIDE project
- Name: Fast proteomics with dia-PASEF and analytical flow-rate chromatography