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PXD000061 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteome-wide purification of O-GlcNAc proteins
DescriptionGlobal O-GlcNAc profiling: proteome-wide purification and identification of O-GlcNAc proteins using GlcNAz metabolic labeling in combination with Click chemistry and label-free LC-MS/MS-based quantification. OGA inhibition: same workflow as 'Global O-GlcNAc profiling'; inhibition of O-GlcNAcase by a small molecule inhibitor. O-GlcNAc sites: identification of O-GlcNAc sites by metabolic labeling/Click chemistry followed by beta elimination Bioinformatics workflow of Global O-GlcNAc profiling and OGA inhibition experiments: Raw mass spectrometry files have been processed using Progenesis LC-MS (4.0) and exported as Mascot generic format for subsequent Mascot (2.3) database search. Mascot search results were processed using Mascot Percolator and the results have been imported back into Progenesis as well as imported to Scaffold (3.5.1). The Progenesis peptide quantification report has been exported as Excel file. Bioinformatics workflow of O-GlcNAc site identification: Raw mass spectrometry files have been processed using Mascot Distiller 2.3 and searched with Mascot. Mascot search results were processed using the Mascot Percolator and imported into Scaffold (3.5.1). After manual validation, peptide and protein identifications (Scaffold file) were imported into Scaffold PTM 2.0 for the estimation of site localization probabilities.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterHannes Hahne
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListO-(N-acetylamino)glucosyl-L-threonine; O-(N-acetylamino)glucosyl-L-serine
InstrumentLTQ Orbitrap; LTQ Orbitrap Velos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02012-10-31 07:49:13ID requested
12013-01-10 06:44:38announced
12014-07-25 00:42:44announced
22013-07-29 04:07:47announcedAdd reference
Publication List
Hahne H, Sobotzki N, Nyberg T, Helm D, Borodkin VS, van Aalten DM, Agnew B, Kuster B, Proteome wide purification and identification of O-GlcNAc-modified proteins using click chemistry and mass spectrometry. J Proteome Res, 12(2):927-36(2013) [pubmed]
Keyword List
submitter keyword: O-GlcNAc, proteomics, metabolic labeling, Click chemistry
Contact List
Hannes Hahne
contact affiliationChair of Proteomics and Bioanalytics, TU M√ľnchen
contact emailhannes.hahne@tum.de
Full Dataset Link List
Dataset FTP location
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