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PXD024427 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteomic analysis of IDHmut gliomas suggests novel classification with greater separation than 1p/19q codeletion status
DescriptionGlial cell-derived brain tumors (gliomas) are devastating diseases without effective curative therapies. Gliomas are classified according to various schemes including the cancer-initiating cell type, World Health Organization tumor grades, and genetic markers such as Isocitrate dehydrogenase (IDH) mutations and chromosomal 1p/19q codeletion status. Genomics, transcriptomics and methylomics approaches are emerging as powerful means to refine classification. However, various aspects of cancer biology are solely reflected on the proteomelevel. Here, we employ mass spectrometry (MS) to characterize the proteomes and phospho-proteomes of IDHmut glioma entities with and without 1p/19q codeletion, IDHwt gliomas and control tissue from a total of 42 patients. Our data-dependent acquisition MS workflow on average quantifies more than 5000 proteins and 3000 phospho-sites per sample of formalin-fixed paraffin-embedded (FFPE) brain sections. The tumor proteomes reflected genetic alterations such as the loss of chromosome 1p/19q proteins, the loss of ATRX in non-codeletion IDHmut glioma, and the frequent loss and amplification of chromosomes 10 and 7, respectively,in IDH-wild type glioma. Nevertheless, 1p/19q codeletion status was not the major determinant of IDHmut glioma proteomes. Instead, the proteome profiles suggest an alternative classification of IDHmut gliomas that correlates with the loss of mitochondrial DNA-encoded proteins, the abundance of respiratory chain proteins, a distinct tumor suppressor and oncoprotein profile, an extracellular matrix signature, and alterations in the phospho-proteome. Moreover, the glioma association of numerous proteins implicated in other cancers by this dataset provides a resource for further mechanistic investigation of glioma genesis and progression.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListphosphorylated residue; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF; Q Exactive HF-X
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-03-01 04:44:23ID requested
12022-11-09 05:41:22announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: proteomics,Glioma, Glioblastoma, Isocitrate dehydrogenase, 1p/19q-codeletion
Contact List
contact affiliationDepartment of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany NNF Center for Protein Research, Faculty of Health Sciences, University of Copenhagen, Copenhagen, Denmark
contact emailmmann@biochem.mpg.de
lab head
contact affiliationProteomics
contact emailoroshi@biochem.mpg.de
dataset submitter
Full Dataset Link List
Dataset FTP location
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