PXD013980

PXD013980 is an original dataset announced via ProteomeXchange.

Title	SILAC-Based Quantification of TGFBR2-Dependent Protein Expression in Extracellular Vesicles of Microsatellite Unstable Colorectal Cancers
Description	Microsatellite unstable (MSI) colorectal cancers (CRCs) are characterized by Transforming Growth Factor Beta Receptor Type 2 (TGFBR2) deficiency. TGFBR2-deficient CRCs present altered target gene and protein expression. Such cellular alterations modulate the content of CRC-derived extracellular vesicles (EVs). EVs function as couriers of proteins, nucleic acids, and lipids in intercellular communication. At a qualitative level, we have previously shown that TGFBR2 deficiency can cause overall alterations in the EV protein content. To deepen the basic understanding of altered protein dynamics, this work aimed to quantify EV protein signatures in a TGFBR2-dependent manner. Using a SILAC approach for mass spectrometry-based quantification, 48 proteins that appeared to be regulated by cellular TGFBR2 expression were identified in MSI-derived EVs. TGFBR2-primed EVs were enriched in proteasome-associated proteins, whereas TGFBR2 deficiency led to upregulation of EV proteins related to the extracellular matrix and nucleosome. Altogether, the present study emphasizes the general overlap of proteins between EVs and their parental CRC cells and highlights the pathological role of the MSI tumor driver mutation affecting TGFBR2 by altering protein landscapes of EVs. From a clinical perspective, TGFBR2-regulated quantitative differences of protein expression in EVs might nominate novel biomarkers for liquid biopsy-based MSI typing in the future.
HostingRepository	PRIDE
AnnounceDate	2019-09-04
AnnouncementXML	Submission_2019-09-04_00:20:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fabia Fricke
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2019-05-23 03:09:32	ID requested
⏵ 1	2019-09-04 00:20:55	announced

Fricke F, Michalak M, Warnken U, Hausser I, Schn, ö, lzer M, Kopitz J, Gebert J, SILAC-Based Quantification of TGFBR2-Regulated Protein Expression in Extracellular Vesicles of Microsatellite Unstable Colorectal Cancers. Int J Mol Sci, 20(17):(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: proteomics, SILAC, extracellular vesicles, microsatellite instability, colorectal cancer

Jürgen Kopitz
contact affiliation	Dept. Applied Tumor Biology Institute of Pathology Im Neuenheimer Feld 224 69120 Heidelberg Germany
contact email	juergen.kopitz@med.uni-heidelberg.de
lab head
Fabia Fricke
contact affiliation	PhD Student
contact email	f.fricke@dkfz-heidelberg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD013980
     1. Label: PRIDE project
     2. Name: SILAC-Based Quantification of TGFBR2-Dependent Protein Expression in Extracellular Vesicles of Microsatellite Unstable Colorectal Cancers