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PXD007101

PXD007101 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleImprovement of ubiquitination site detection by Orbitrap mass spectrometry.
DescriptionWe describe a modified workflow to enrich for and detect diGly peptides originating from ubiquitinated proteins using immunopurification. Using a combination of several relatively simple modifications in the sample preparation and mass spectrometric detection protocols, we now routinely detect over 24,000 diGly modified peptides in a single sample. We show the efficacy of this strategy for cell lysates from both non-labeled and metabolically labeled (SILAC) mammalian cells. Furthermore, we demonstrate that this optimized strategy is also useful for the in-depth identification of the endogenous, unstimulated ubiquitinome of in vivo samples such as mouse brain tissue. As such, this study presents an addition to the toolbox of the ubiquitination site analysis for the identification of the deep ubiquitinome.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:39:37.201.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterJeroen Demmers
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListubiquitinylated lysine
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02017-07-21 06:32:13ID requested
12017-11-14 00:56:49announced
22024-10-22 04:39:39announced2024-10-22: Updated project metadata.
Publication List
10.1016/j.jprot.2017.10.014;
van der Wal L, Bezstarosti K, Sap KA, Dekkers DHW, Rijkers E, Mientjes E, Elgersma Y, Demmers JAA, Improvement of ubiquitylation site detection by Orbitrap mass spectrometry. J Proteomics, 172():49-56(2018) [pubmed]
Keyword List
curator keyword: Technical
submitter keyword: Ubiquitinome, SILAC, Hela, ubiquitination, U2OS, ubiquitin, Orbitrap Lumos, diGly peptides, mouse brain tissue
Contact List
Jeroen Demmers
contact affiliationProteomics Center, Erasmus University Medical Center, Rotterdam, The Netherlands
contact emailj.demmers@erasmusmc.nl
lab head
Jeroen Demmers
contact affiliationProteomics Center, Erasmus University Medical Center, Rotterdam, The Netherlands
contact emailj.demmers@erasmusmc.nl
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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