PXD021521-1

PXD021521 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	In-depth analysis of proteomic and genomic fluctuations during the time course of human embryonic stem cells directed differentiation into beta cells
Description	Pluripotent stem cells (PSC) endocrine differentiation at a large scale allows sampling of transcriptome and proteome with phosphoproteome (proteoform) at specific time points. We describe the dynamic time course of changes in cells undergoing directed beta cell differentiation and show target proteins or previously unknown phosphorylation of critical proteins in pancreas development, NKX6.1, and Chromogranin A (CHGA). We describe fluctuations in the correlation between gene expression, its protein abundance, and phosphorylation, which follow differentiation protocol perturbations of cell fates at all stages to id entify proteoform profiles. Our computational modeling recognizes outliers on a phenomic landscape of endocrine differentiation, and we outline several new biological pathways involved. We also suggest that non correlating proteins abundances or new phosphorylation motifs of NKX6.1 and CHGA point to new signaling pathways that may play an essential role in beta cell development.
HostingRepository	MassIVE
AnnounceDate	2021-10-18
AnnouncementXML	Submission_2021-10-18_09:17:33.970.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Bogdan Budnik
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Oxidation; Deamidated; TMT6plex; Carbamidomethyl
Instrument	Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-09-16 11:43:01	ID requested
⏵ 1	2021-10-18 09:17:34	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: Pluripotent stem cells, beta cell differentiation, proteogenomics, phosphoproteomics

submitter keyword: Pluripotent stem cells, beta cell differentiation, proteogenomics, phosphoproteomics

Contact List

Dmitry Shvartsman
contact affiliation	Harvard University
contact email	dshvartsman@cellariabio.com
lab head
Bogdan Budnik
contact affiliation	Harvard University
contact email	bbudnik@mcb.harvard.edu
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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MassIVE dataset URI

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://massive.ucsd.edu/MSV000086154/