PXD000947

PXD000947 is an original dataset announced via ProteomeXchange.

Title	A Proteomics Approach to Identify New Cardiac Intercalated Disc Proteins
Description	Synchronous beating of the heart is dependent on the efficient functioning of the cardiac intercalated disc (ID). The ID is composed of a complex protein network enabling electrical continuity and chemical communication between individual cardiomyocytes. Off late a lot of studies have shed light on increasingly prevalent cardiac diseases involving the ID. Insufficient knowledge of the ID composition makes it difficult to study these disease mechanisms in more detail. Here, for the first time using a combination of membrane enrichment, in-depth proteomics analysis and bioinformatics strategies, we have discovered a defined set of new putative ID proteins. An ID enriched membrane fraction, which included the ID markers connexin-43 (Cx43) and n-cadherin, was prepared using differential centrifugation. We quantitatively evaluated 3455 proteins for their enrichment in the ID-enriched membrane fraction with respect to their levels in the counterpart soluble fraction. An intuitive data filtering approach was used to generate a final set of 97 high potential ID proteins. These included well-known markers such as Cx43 and n-cadherin, but also several interesting novel candidates. We selected 4 candidates (Flotillin-2 (flot2), Nexilin (nexn), Popeye-domain-containg-protein 2 (popdc2) and thioredoxin-related-transmembrane-protein 2 (tmx2)) and confirmed their co-localization with n-cadherin, and thus their enrichment in the ID of human, dog and rat heart sections and isolated cardiomyocytes
HostingRepository	PRIDE
AnnounceDate	2016-04-12
AnnouncementXML	Submission_2016-05-10_02:41:39.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mirjam Damen
SpeciesList	scientific name: Rattus rattus (Black rat); NCBI TaxID: 10117;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2014-05-02 00:58:05	ID requested
1	2016-04-12 03:45:25	announced
⏵ 2	2016-05-10 02:41:40	announced	Updated publication reference for PubMed record(s): 27148881.

Soni S, Raaijmakers AJ, Raaijmakers LM, Damen JM, van Stuijvenberg L, Vos MA, Heck AJ, van Veen TA, Scholten A, A Proteomics Approach to Identify New Putative Cardiac Intercalated Disk Proteins. PLoS One, 11(5):e0152231(2016) [pubmed]

curator keyword: Biological

submitter keyword: Rat, heart, intercalated disc, lc-msms

Arjen Scholten
contact affiliation	Biomolecular Mass Spectrometry & Proteomics Department of Pharmacy Utrecht University The Netherlands
contact email	A.Scholten@uu.nl
lab head
Mirjam Damen
contact affiliation	Utrecht University Biomolecular mass spectrometrie and proteomics
contact email	J.M.A.Damen@uu.nl
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/2016/04/PXD000947

PRIDE project URI

• PRIDE
  1. PXD000947
     1. Label: PRIDE project
     2. Name: A Proteomics Approach to Identify New Cardiac Intercalated Disc Proteins