PXD001352

PXD001352 is an original dataset announced via ProteomeXchange.

Title	Absolute protein quantification allows differentiation of cell specific metabolic routes and functions
Description	Total protein approach (TPA) is a proteomic method which allows calculation of concentrations of individual proteins and groups of functionally related proteins in any protein mixture without spike-in standards. Using the two step digestion filter aided sample preparation method and LC-MS/MS analysis we generated comprehensive quantitative datasets of mouse intestinal mucosa, liver, red muscle fibers, brain, and of human plasma, erythrocytes, and tumor cells lines. We show that the TPA based quantitative data reflect well-defined and specific physiological functions of different organs and cells, for example nutrient absorption and transport in intestine, amino acid catabolism and bile secretion in liver, and contraction of muscle fibers. Focusing on key metabolic processes we compared metabolic capacities in different tissues and cells. In addition, we demonstrate quantitative differences in the mitochondrial proteomes. Providing insight into the abundances of mitochondrial metabolite transporters we demonstrate that their titers are well tuned to cell specific metabolic requirements. This study provides for the first time a comprehensive overview of the protein hardware mediating metabolism in different mammalian organs and cells. The presented approach can be applied to any other system to study biological processes.
HostingRepository	PRIDE
AnnounceDate	2014-12-15
AnnouncementXML	Submission_2014-12-15_09:22:45.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mario Oroshi
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	acetylated residue; phosphorylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2014-09-22 02:32:30	ID requested
⏵ 1	2014-12-15 09:22:46	announced

Wi, ś, niewski JR, Koepsell H, Gizak A, Rakus D, Absolute protein quantification allows differentiation of cell-specific metabolic routes and functions. Proteomics, 15(7):1316-25(2015) [pubmed]

curator keyword: Biological

submitter keyword: Absolute protein quantification allows differentiation of cell specific metabolic routes and functions

Jacek R Wisniewski
contact affiliation	Dept. Proteomics and Signal Transduction Max-Planck Institute of Biochemistry
contact email	jwisniew@biochem.mpg.de
lab head
Mario Oroshi
contact affiliation	Proteomics
contact email	oroshi@biochem.mpg.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/2014/12/PXD001352

PRIDE project URI

• PRIDE
  1. PXD001352
     1. Label: PRIDE project
     2. Name: Absolute protein quantification allows differentiation of cell specific metabolic routes and functions