PXD020823

PXD020823 is an original dataset announced via ProteomeXchange.

Title	Divide-and-conquer matrisome protein (DC-MaP) strategy: an optimal approach to proteomic matrisome characterization
Description	Currently, the extracellular matrix (ECM) is considered a pivotal complex meshwork of macromolecules playing a plethora of biomolecular functions in health and disease beyond its commonly known mechanical role. Only by unravelling its composition, we can leverage related tissue engineering and pharmacological efforts. Nevertheless, its unbiased proteomic identification still encounters major limitations mainly due to partial ECM enrichment by precipitation, sequential fractionation using unfriendly mass spectrometry (MS) detergents and resuspension with harsh reagents that need to be entirely removed prior to analysis. These methods can be technically challenging and labor-intensive, which affects the reproducibility of ECM identification and induces protein loss. Here, we present a simple new method applicable to tissue fragments of 10 mg and more. The technique involves a standardized procedure for sample processing with an MS-compatible detergent and combined centrifugation. This two-step protocol eliminates the need for laborious sample clarification and divides our samples into 2 fractions, soluble and insoluble, successively enriched with matrisome-associated (ECM-interacting) and core matrisome (structural ECM) proteins.
HostingRepository	PRIDE
AnnounceDate	2020-12-03
AnnouncementXML	Submission_2020-12-03_06:42:57.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD020823
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Didier Vertommen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-08-10 09:04:09	ID requested
⏵ 1	2020-12-03 06:42:58	announced

Ouni E, Ruys SPD, Dolmans MM, Herinckx G, Vertommen D, Amorim CA, Divide-and-Conquer Matrisome Protein (DC-MaP) Strategy: An MS-Friendly Approach to Proteomic Matrisome Characterization. Int J Mol Sci, 21(23):(2020) [pubmed]

submitter keyword: human, ovarian, matrisome, fractionation, identifcation, proteins

Amorim Christiani
contact affiliation	Pôle de Recherche en Gynécologie, Institut de Recherche Expérimentale et Clinique, Université Catholique de Louvain, 1200 Brussels, Belgium
contact email	christiani.amorim@uclouvain.be
lab head
Didier Vertommen
contact affiliation	UCL - de Duve Institute, Brussels Belgium
contact email	didier.vertommen@uclouvain.be
dataset submitter

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/2020/12/PXD020823

PRIDE project URI

• PRIDE
  1. PXD020823
     1. Label: PRIDE project
     2. Name: Divide-and-conquer matrisome protein (DC-MaP) strategy: an optimal approach to proteomic matrisome characterization