PXD004573 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS: PTM-SWATH-MS Gold Standard data set |
Description | The PTM-SWATH MS Gold Standard data set consists of a previously published (Soste et al., 2014, PMID:25194849) set of 579 unpurified, synthetic, heavy-isotope labeled phosphopeptides (Thermo Scientific Biopolymers). These phosphopeptides represent biologically relevant sequences from S. cerevisiae proteins, which have been found altered in their phosphorylation status under various conditions. The complete peptide set contains a mixture of singly and doubly phosphorylated sequences with in average more than 3 modifiable residues per peptide (serines, threonines or tyrosins, often in close proximity to each other). All peptides were mixed with equal volumes (concentrations are unknown due to the unpurified status of the peptides) and the resulting peptide mix was either analyzed directly in DDA mode for assay library generation or spiked into a human cell line background proteome in a 13-step dilution series and analyzed in SWATH mode for the generation of the SWATH Gold Standard data set. |
HostingRepository | PRIDE |
AnnounceDate | 2017-06-12 |
AnnouncementXML | Submission_2017-06-12_01:26:47.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | George Rosenberger |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932; |
ModificationList | No PTMs are included in the dataset |
Instrument | TripleTOF 5600 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2016-07-14 03:01:23 | ID requested | |
⏵ 1 | 2017-06-12 01:26:47 | announced | |
2 | 2017-06-19 08:15:42 | announced | Updated publication reference for PubMed record(s): 28604659. |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: yeast, human, synthetic phosphopeptides, gold standard data set, OpenSWATH, IPF |
Contact List
Ruedi Aebersold |
contact affiliation | ETH Zurich Prof. Dr. Ruedi Aebersold Institute of Molecular Systems Biology Head of Department of Biology HPT E 78 Auguste-Piccard-Hof 1 CH-8093 Zurich Switzerland |
contact email | aebersold@imsb.biol.ethz.ch |
lab head | |
George Rosenberger |
contact affiliation | Institute of Molecular Systems Biology ETH Zurich |
contact email | rosenberger@imsb.biol.ethz.ch |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/06/PXD004573 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD004573
- Label: PRIDE project
- Name: Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS: PTM-SWATH-MS Gold Standard data set