PXD031054-1

PXD031054 is an original dataset announced via ProteomeXchange.

Title	Quantitative proteomics and in-cell cross-linking reveal cellular reorganization during early neuronal differentiation of SH-SY5Y cells induced by retinoic acid or phorbol-12-myristat-13-acetate
Description	The proteomes of undifferentiated and differentiated SH-SY5Y cells are characterised and compared. For this, neuronal differentiation using retinoic acid (RA) or a combination of RA and phorbol-12-myristat-13-acetate (RA/PMA) was explored. An MS-based label-free quantification approach is applied to identify changes in the protein expression, the as proteins’ subcellular localisation abundance as well as their association with enriched KEGG pathways. By employing formaldehyde cross-linking insights into protein interaction networks of undifferentiated as well as RA- and RA/PMA-differentiated neurons are obtained. The analyses provided insights into the proteomes of undifferentiated and differentiated SH-SY5Y cells and suggest structural rearrangements, for instance, of the actin network during neuronal differentiation.
HostingRepository	PRIDE
AnnounceDate	2022-04-08
AnnouncementXML	Submission_2022-04-08_03:12:33.420.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marie Barth
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2022-01-18 02:32:12	ID requested
⏵ 1	2022-04-08 03:12:33	announced
2	2022-04-08 08:41:09	announced	2022-04-08: Updated project metadata.

Dataset with its publication pending

submitter keyword: proteomics, protein networks, chemical cross-linking, mass spectrometry, actin, SH-SY5Y

Carla Schmidt
contact affiliation	Interdisciplinary research center HALOmem, Institute of Biochemistry and Biotechnology, Charles Tanford Protein Center, Martin Luther University Halle-Wittenberg, Halle, Germany
contact email	carla.schmidt@biochemtech.uni-halle.de
lab head
Marie Barth
contact affiliation	HALOmem, Martin Luther University Halle-Wittenberg
contact email	marie.barth@bct.uni-halle.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/2022/04/PXD031054

PRIDE project URI

• PRIDE
  1. PXD031054
     1. Label: PRIDE project
     2. Name: Quantitative proteomics and in-cell cross-linking reveal cellular reorganization during early neuronal differentiation of SH-SY5Y cells induced by retinoic acid or phorbol-12-myristat-13-acetate