PXD004652-1

PXD004652 is an original dataset announced via ProteomeXchange.

Title	ULTRADEEP CHARACTERIZATION OF THE DIFFERENTIATION OF HUMAN EMBRYONIC STEM CELLS INTO MESENCHYMAL STEM CELLS
Description	Mesenchymal stem cells (MSC) are self-renewing multipotent cells which hold great potential in reconstructive medicine and have been shown to be beneficial for the treatment of a variety of diseases. MSC can be derived from multiple adult tissues but have limited expansion capacity in cell culture. Highly proliferative ESC-derived MSC may be an alternative source for MSC but to date no standardized protocol exists which meets clinical standards. We extended and improved a published protocol (Raynaud et al., 2013) for the differentiation of human embryonic stem cells (ESC) into highly-proliferative MSC. To characterize the differentiation process in-depth we performed comprehensive transcriptome analysis (RNA-seq) combined with large-scale proteomic and phosphoproteomic profiling using quantitative high resolution mass spectrometric analysis. Differentiation was followed over a time course of 30 days including sampling on days 0, 1, 2, 5, 15, and 30. ESC-derived MSC were compared to adult tissue-derived MSC (bone marrow MSC) as well as to their origin (ESC). The established differentiation protocol is highly reproducible and may be adapted for clinical use. The comprehensive analysis of the differentiation process will improve understanding of MSC biology and therefore directly benefit MSC-based therapies.
HostingRepository	PRIDE
AnnounceDate	2019-07-23
AnnouncementXML	Submission_2019-07-23_14:40:55.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Johannes Graumann
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-25 05:39:19	ID requested
⏵ 1	2019-07-23 14:40:56	announced
2	2019-07-24 00:30:26	announced	Updated project metadata.
3	2019-07-26 00:30:17	announced	Updated project metadata.
4	2019-08-01 04:42:25	announced	Updated project metadata.
5	2021-10-29 04:35:27	announced	2021-10-29: Updated project metadata.

Dataset with its publication pending

curator keyword: Biomedical

submitter keyword: Human embryonic stem cells, human mesenchymal stem cells, bone marrow, differentiation, transcriptome, proteome, phosphoproteome, quantitative proteomics, LC-MS/MS, RNA-seq

Johannes Graumann
contact affiliation	Weill Cornell Medicine - Qatar
contact email	jog2030@qatar-med.cornell.edu
lab head
Johannes Graumann
contact affiliation	Weill Cornell Medicine - Qatar
contact email	jog2030@qatar-med.cornell.edu
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/2019/07/PXD004652

PRIDE project URI

• PRIDE
  1. PXD004652
     1. Label: PRIDE project
     2. Name: ULTRADEEP CHARACTERIZATION OF THE DIFFERENTIATION OF HUMAN EMBRYONIC STEM CELLS INTO MESENCHYMAL STEM CELLS