PXD039510

PXD039510 is an original dataset announced via ProteomeXchange.

Title	Identifying secreted biomarkers of dopaminergic ventral midbrain progenitor cells
Description	Ventral midbrain (VM) dopaminergic progenitor cells derived from human pluripotent stem cells have the potential to replace endogenously lost dopamine neurons and are currently in preclinical and clinical development for treatment of Parkinson’s Disease (PD). However, one main challenge in the quality control of the cells is that rostral and caudal VM progenitors are extremely similar transcriptionally though only the caudal VM cells give rise to dopaminergic neurons with functionality in PD. Therefore, it is critical to develop assays which can rapidly and reliably discriminate rostral from caudal VM cells during clinical manufacturing. Here, we applied shotgun proteomics to search for novel secreted biomarkers specific for caudal VM progenitors compared to rostral VM progenitors and validated key hits by ELISA. From this, we identified novel secreted markers (CPE, LGI1 and PDGFC) significantly enriched in caudal versus rostral VM progenitor cultures, whereas the markers CNTN2 and CORIN were significantly enriched in rostral VM cultures. With this data, we suggest and test in clinical grade samples a panel of coupled ELISA assays that can be applied as a quality control tool for assessing the correct patterning of cells during clinical manufacturing.
HostingRepository	PRIDE
AnnounceDate	2023-12-13
AnnouncementXML	Submission_2023-12-13_03:39:49.306.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marc Isaksson
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF-X; Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-17 01:16:01	ID requested
⏵ 1	2023-12-13 03:39:49	announced

10.1186/S13287-023-03580-5;

submitter keyword: Parkinson’s Disease, cell replacement therapy,Mass spectrometry, Dopaminergic progenitors, Biomarkers

Agnete Kirkeby
contact affiliation	Novo Nordisk Foundation Center for Stem Cell Medicine – reNEW, University of Copenhagen, Copenhagen, Denmark; Department of Neuroscience, University of Copenhagen, Copenhagen, Denmark; Department of Experimental Medical Science, Lund University, Sweden; Wallenberg Center for Molecular Medicine, Lund University, Lund, Sweden.
contact email	agnete.kirkeby@sund.ku.dk
lab head
Marc Isaksson
contact affiliation	Lund University
contact email	marc.isaksson@bme.lth.se
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/2023/12/PXD039510

PRIDE project URI

• PRIDE
  1. PXD039510
     1. Label: PRIDE project
     2. Name: Identifying secreted biomarkers of dopaminergic ventral midbrain progenitor cells