PXD006115

PXD006115 is an original dataset announced via ProteomeXchange.

Title	Proteomics identification of regulated proteins during cardyomyocyte differentiation
Description	The rat cardio-myoblast cell line H9C2 has emerged as an important tool for studying cardiac development and toxicology. We present here a rigorous proteomic analysis that for the first time studied changes of proteins during H9C2 differentiation into cardiomyocyte-like cells over time. Quantitative mass spectrometry followed by gene ontology (GO) enrichment analysis revealed early changes in protein pathways that enable cardiac muscle morphogenesis/contraction and suggested an involvement of proteins relevant to sphingolipid synthesis. This early differentiation was followed by differentiation-induced alterations in cation transport and beta-oxidation at later time points. Applying a two-way ANOVA to study the temporal profile of H9C2 differentiation in further detail revealed eight clusters of co-regulated proteins that could be associated to early, late, continuous and transient up- and downregulation. Subsequent Reactome pathway analysis based on these eight clusters further corroborated and detailed the results of the GO analysis. Specifically, this analysis confirmed proteins related to pathways in muscle contraction as early and transiently upregulated, and proteins relevant to ECM matrix organization as early downregulated, while changes related to cardiac metabolism occurred at later time points. Our results are in line with a ‘function follows form’ model of differentiation, whereby early and transient changes of cellular morphology enable subsequent changes that are relevant for the characteristic physiology of cardiac cells.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:04:36.113.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Impens Francis
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2017-03-20 02:42:41	ID requested
1	2018-11-07 01:00:49	announced
⏵ 2	2024-10-22 04:04:38	announced	2024-10-22: Updated project metadata.

10.1039/c8mo00036k;

Kankeu C, Clarke K, Van Haver D, Gevaert K, Impens F, Dittrich A, Roderick HL, Passante E, Huber HJ, Quantitative proteomics and systems analysis of cultured H9C2 cardiomyoblasts during differentiation over time supports a 'function follows form' model of differentiation. Mol Omics, 14(3):181-196(2018) [pubmed]

curator keyword: Biological

submitter keyword: Rattus norvegicus, labelfree shotgun proteomics,cardiac development, H9C2 cells

Heinrich Huber
contact affiliation	Laboratory for Systems Theory and Automatic Control, Institute for Automation Engineering (IFAT), Otto-von-Guericke University Magdeburg, 39106 Magdeburg, Germany
contact email	heinrich.huber@ovgu.de
lab head
Impens Francis
contact affiliation	VIB Proteomics Core Ghent University
contact email	francis.impens@vib-ugent.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/2018/11/PXD006115

PRIDE project URI

• PRIDE
  1. PXD006115
     1. Label: PRIDE project
     2. Name: Proteomics identification of regulated proteins during cardyomyocyte differentiation