PXD013399-3

PXD013399 is an original dataset announced via ProteomeXchange.

Title	Deciphering the protein dynamics and molecular determinants of iPSC-derived neurons.
Description	Neuronal development is a multistep process with different regulatory programs that shapes neurons to form dendrites, axons and synapses. To date, knowledge on neuronal development is largely based on murine data and largely restricted to the genomic and transcriptomic level. Advances in stem cell differentiation now enable the study of human neuronal development, and here we provide a mass spectrometry-based quantitative proteomic signature, at high temporal resolution, of human stem cell-derived neurons. To reveal proteomic changes during neuronal development we make use of two different differentiation approaches, leading to glutamatergic induced neurons (iN) or small molecule-derived patterned motor neurons. Our analysis revealed key proteins that show significant expression changes (FDR <0.001) during neuronal differentiation. We overlay our proteomics data with available transcriptomic data during neuronal differentiation and show distinct, datatype-specific, signatures. Overall, we provide a rich resource of information on proteins associated with human neuronal development, and moreover, highlight several signaling pathways involved, such as Wnt and Notch.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:03:18.512.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Suzy Varderidou
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2019-04-08 06:04:43	ID requested
1	2020-05-07 01:06:54	announced
2	2020-05-07 01:09:44	announced	2020-05-07: Updated publication reference for PubMed record(s): 32357013.
⏵ 3	2024-10-22 05:03:26	announced	2024-10-22: Updated project metadata.

Varderidou-Minasian S, Verheijen BM, Sch, ä, tzle P, Hoogenraad CC, Pasterkamp RJ, Altelaar M, Deciphering the Proteome Dynamics during Development of Neurons Derived from Induced Pluripotent Stem Cells. J Proteome Res, 19(6):2391-2403(2020) [pubmed]

10.1021/acs.jproteome.0c00070;

submitter keyword: iPSC

human

neuron differentiation

quantitative mass spectrometry

TMT-10plex

Maarten Altelaar
contact affiliation	Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH Utrecht, the Netherlands.
contact email	m.altelaar@uu.nl
lab head
Suzy Varderidou
contact affiliation	S
contact email	suzannavarderidou@hotmail.com
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/2020/05/PXD013399

PRIDE project URI

• PRIDE
  1. PXD013399
     1. Label: PRIDE project
     2. Name: Deciphering the protein dynamics and molecular determinants of iPSC-derived neurons.