PXD001856

PXD001856 is an original dataset announced via ProteomeXchange.

Title	Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers
Description	Mesenchymal stem cells (MSC) are multipotent cells with great potential in therapy, reflected by more than 500 MSC-based clinical trials registered with the NIH. MSC are derived from multiple tissues but require invasive harvesting and imply donor-to-donor variability. Embryonic stem cell-derived MSC (ESC-MSC) may provide an alternative, but how similar they are to ex vivo MSC is not known. Here we performed an in depth characterization of human ESC-MSC, comparing them to human bone marrow-derived MSC (BM-MSC) as well as hESC by transcriptomics (RNA-Seq) and quantitative proteomics (nano LC-MS/MS using SILAC). Data integration highlighted and validated a central role of vesicle-mediated transport and exosomes in MSC biology and also demonstrated, through enrichment analysis, their versatility and broad application potential. A particular emphasis was placed on comparing profiles between ESC-MSC and BM-MSC and assessing their equivalency. Data presented here shows that differences between ESC-MSC and BM-MSC are similar in magnitude to those reported for MSC of different origin and the former may thus represent an alternative source for therapeutic applications. Finally, we report an unprecedented coverage of MSC CD markers, as well as membrane associated proteins which may benefit immunofluorescence-based applications and contribute to a refined molecular description of MSC.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:23:27.718.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	acetylated residue; monohydroxylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-03-02 07:44:22	ID requested
1	2016-02-09 03:44:46	announced
2	2016-03-16 06:17:13	announced	Updated publication reference for PubMed record(s): 26857143.
3	2021-10-29 04:40:05	announced	2021-10-29: Updated project metadata.
⏵ 4	2024-10-22 04:23:30	announced	2024-10-22: Updated project metadata.

Billing AM, Ben Hamidane H, Dib SS, Cotton RJ, Bhagwat AM, Kumar P, Hayat S, Yousri NA, Goswami N, Suhre K, Rafii A, Graumann J, Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers. Sci Rep, 6():21507(2016) [pubmed]

10.1038/srep21507;

curator keyword: Biological, Biomedical

submitter keyword: RNA Sequencing, bone marrow,human mesenchymal stem cells, human embryonic stem cells, quantitative proteomics, aptamer-based SOMSscan assay, LC-MS/MS

Johannes Graumann
contact affiliation	Weill Cornell Medical College in Qatar
contact email	jog2030@qatar-med.cornell.edu
lab head
Johannes Graumann
contact affiliation	Max Planck Institute for Heart and Lung Research
contact email	johannes.graumann@mpi-bn.mpg.de
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/2016/02/PXD001856

PRIDE project URI

• PRIDE
  1. PXD001856
     1. Label: PRIDE project
     2. Name: Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers