<<< Full experiment listing

PXD010859

PXD010859 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitlePrecisely measured protein lifetimes in the mouse
DescriptionThe turnover of brain proteins is critical for organism survival, and its perturbations are strongly linked to pathology. Nevertheless, precise protein lifetimes have been difficult to obtain in vivo. They are readily measured in vitro by feeding cells with isotopically-labeled amino acids, followed by mass spectrometry analyses. In vivo proteins are generated from at least two sources: labeled amino acids from the diet, and non-labeled amino acids from the degradation of pre-existing proteins. This renders measurements difficult. We solved this problem rigorously by developing a novel workflow that combines mouse in vivo isotopic labeling with mass spectrometry and mathematical modeling. We also established several independent approaches to test and validate the results. This enabled us to measure, for the first time, the accurate lifetimes of ~3500 brain proteins. The high precision of our data provided a large set of biologically-significant observations, including pathway-, organelle-, organ-, or cell-specific effects, along with a comprehensive catalogue of stable proteins, including novel extremely long-lived proteins (ELLPs).
HostingRepositoryPRIDE
AnnounceDate2018-12-04
AnnouncementXMLSubmission_2018-12-04_04:07:56.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSunit Mandad
SpeciesList scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-08-24 02:00:45ID requested
12018-11-21 02:44:38announced
22018-12-04 04:07:58announcedUpdated project metadata.
Publication List
Fornasiero EF, Mandad S, Wildhagen H, Alevra M, Rammner B, Keihani S, Opazo F, Urban I, Ischebeck T, Sakib MS, Fard MK, Kirli K, Centeno TP, Vidal RO, Rahman RU, Benito E, Fischer A, Dennerlein S, Rehling P, Feussner I, Bonn S, Simons M, Urlaub H, Rizzoli SO, Precisely measured protein lifetimes in the mouse brain reveal differences across tissues and subcellular fractions. Nat Commun, 9(1):4230(2018) [pubmed]
Keyword List
ProteomeXchange project tag: Human Brain Proteome Project (HUPO_HBPP) (B/D-HPP)
curator keyword: Biological
submitter keyword: Protein lifetimes, metabolic labeling, brain turnover, ELLPs, neuron, glia, cortex, cerebellum
Contact List
Silvio O. Rizzoli
contact affiliationDepartment of Neuro- and Sensory Physiology University Medical Center Göttingen Humboldtallee 23 37073 Göttingen
contact emailsrizzol@gwdg.de
lab head
Sunit Mandad
contact affiliationUniversity Medical Centre Göttingen, Georg-August-Universität
contact emailsmandad@gwdg.de
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/2018/11/PXD010859
PRIDE project URI
Repository Record List
[ + ]