PXD003085

PXD003085 is an original dataset announced via ProteomeXchange.

Title	Selection of reference peptides for absolute quantification of budding yeast proteome
Description	Absolute quantification of proteome is one of the most important tasks in proteomic research. The aim in this analysis is selection of reference tryptic peptides used for stable isotope-labeled standard, based on their spectral peak intensities. Approximate abundance is also calculated by label-free quantitative method, in which identification frequency (counts of peptide spectral matchings) in each protein is normalized by observability of peptide ions to calculate relative copy number of proteins. For proteins with higher relative copy number, peptide ions that fulfill following criteria — 2- or 3-charge state, without methionine residues and well known post-translational modification sites — are selected as reference tryptic peptides.
HostingRepository	PRIDE
AnnounceDate	2016-10-06
AnnouncementXML	Submission_2016-10-06_02:27:17.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Keiji Kito
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2015-10-20 06:44:52	ID requested
⏵ 1	2016-10-06 02:27:18	announced

Kito K, Okada M, Ishibashi Y, Okada S, Ito T, A strategy for absolute proteome quantification with mass spectrometry by hierarchical use of peptide-concatenated standards. Proteomics, 16(10):1457-73(2016) [pubmed]

curator keyword: Technical, Biological

submitter keyword: Budding yeast, Absolute quantification, Peptide-concatenated standard (PCS)

Keiji Kito
contact affiliation	School of Agriculture, Meiji University, Japan
contact email	Kito@meiji.ac.jp
lab head
Keiji Kito
contact affiliation	Meiji University
contact email	kito@meiji.ac.jp
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/2016/10/PXD003085

PRIDE project URI

• PRIDE
  1. PXD003085
     1. Label: PRIDE project
     2. Name: Selection of reference peptides for absolute quantification of budding yeast proteome