PXD018321

PXD018321 is an original dataset announced via ProteomeXchange.

Title	Quantification of H3K27 methylation using heavy peptides as standards
Description	To demonstrate the usability of our SIL peptides (JPT GmbH)on an MS application, 4 standard peptides were synthesized at 95% purity and each spiked at an amount 133 fmol into protein extracts of wild type HEK cells and EZH2-knockout cells, respectively. The spiked peptides in this experiment are histone H3 K27-containing heavy-arginine versions of the peptide ARKSAPATGGVKKPH-R, where K27 was synthetically modified to carry either no methylation, or one or two or three (me3) methyl groups, respectively. Previously to trypsination, the HEK samples were spiked with the 4 SIL peptides. Because the standards have 10 Da greater mass given by the heavy R*, they can be distinguished from their light natural versions in the MS1 spectra. Furthermore, the standards were each spiked at a concentration of 133 fmol and thus, their MS intensities were used to normalize the intensities of the endogenous peptides and quantify them in absolute terms.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:02:30.136.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Victor Solis
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monomethylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-04-01 07:59:53	ID requested
1	2020-04-23 06:32:37	announced
⏵ 2	2024-10-22 05:02:33	announced	2024-10-22: Updated project metadata.

10.1002/pmic.202000007;

Schnatbaum K, Solis-Mezarino V, Pokrovsky D, Sch, ä, fer F, Nagl D, Hornberger L, Zerweck J, Knaute T, Avramova-Nehmer J, Schutkowski M, Hornung V, Wenschuh H, V, ö, lker-Albert MC, Imhof A, Reimer U, New Approaches for Absolute Quantification of Stable-Isotope-Labeled Peptide Standards for Targeted Proteomics Based on a UV Active Tag. Proteomics, 20(10):e2000007(2020) [pubmed]

submitter keyword: Human, HEK cells, Histones modifications

Axel Imhof
contact affiliation	Biomedical Center, LMU Munich
contact email	imhof@lmu.de
lab head
Victor Solis
contact affiliation	EpiQMAx GmbH
contact email	solis@genzentrum.lmu.de
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/2020/04/PXD018321

PRIDE project URI

• PRIDE
  1. PXD018321
     1. Label: PRIDE project
     2. Name: Quantification of H3K27 methylation using heavy peptides as standards