PXD002646

PXD002646 is an original dataset announced via ProteomeXchange.

Title	A systematic evaluation of nanocast metal oxide microspheres for phosphoproteomics applications
Description	We used the nanocasting technique to prepare a range of different metal oxide microspheres that allow an objective comparison of the different materials. Using samples of different complexity, ranging from synthetic peptides to whole cell lysates, we characterized the binding behavior of these materials. We observed that the phosphoproteome coverage achievable using TiO2, ZrO2, Fe2O3 and In2O3 is comparable in depth, although some differences between individual oxides exist. Single-shot LC-MS/MS experiments on a linear ion trap-orbitrap instrument identified more than 3000 phosphopeptides from the equivalent of 20 μg of HEK cell lysate protein. However, the application of common enrichment protocols to biological samples may still lead to some bias due to an underrepresentation of highly phosphorylated peptides. These peptides are predominantly observed when materials with lower phosphopeptide affinity such as NiO and Co3O4 are used for enrichment and their biological relevance may be underestimated.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_03:58:55.841.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alexander Leitner
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-07-31 07:28:15	ID requested
1	2017-05-19 01:28:42	announced
⏵ 2	2024-10-22 03:59:01	announced	2024-10-22: Updated project metadata.

10.1039/c7an00570a;

Leitner A, Sakeye M, Zimmerli CE, Sm, å, tt JH, Insights into chemoselectivity principles in metal oxide affinity chromatography using tailored nanocast metal oxide microspheres and mass spectrometry-based phosphoproteomics. Analyst, 142(11):1993-2003(2017) [pubmed]

curator keyword: Technical

submitter keyword: Phosphoproteomics, human, Orbitrap Elite, phosphopeptide enrichment, HEK293

Alexander Leitner
contact affiliation	ETH Zurich, Institute of Molecular Systems Biology
contact email	leitner@imsb.biol.ethz.ch
lab head
Alexander Leitner
contact affiliation	ETH Zurich, Institute of Molecular Systems Biology
contact email	leitner@imsb.biol.ethz.ch
dataset submitter

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/2017/05/PXD002646

PRIDE project URI

• PRIDE
  1. PXD002646
     1. Label: PRIDE project
     2. Name: A systematic evaluation of nanocast metal oxide microspheres for phosphoproteomics applications