PXD023222

PXD023222 is an original dataset announced via ProteomeXchange.

Title	Cdk5r1_KO_TMT-10plex_brain_cell-autonomous_proteomics
Description	Concerted radial migration of newly born cortical projection neurons, from their birthplace to their final target lamina, is a key step in the assembly of the cerebral cortex. The cellular and molecular mechanisms regulating radial neuronal migration in vivo are however still unclear, let alone the effects and interactions with the extracellular environment. Recent evidence suggests that distinct signalling cues act cell-autonomously but differentially at particular steps during the overall migration process. Functional MADM (Mosaic Analysis with Double Markers) analyses in comparison to global knockout also indicate a significant degree of non-cell-autonomous and/or community effects in the control of cortical neuron migration. In this project, we established a MADM-based experimental strategy for the quantitative analysis of cell-autonomous gene function versus non-autonomous and/or community effects, focusing on the Cdk5r1 gene, a neuron-specific activator of Cyclin Dependent Kinase 5 known to play a role, among other functions, in neuronal migration during brain development. This dataset corresponds to a TMT-10plex based proteomics analysis of the effects of full or mosaic KO of Cdk5r1 on the neuronal proteome and aims to provide insights into its distinct cell-autonomous and non-autonomous roles in neuronal migration. This dataset and complementary experimental approaches were integrated using computational modelling to define so far unknown cell-autonomous functions of candidate signalling pathways intersecting with non-cell-autonomous effects to coordinate radial neuron migration.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:40:53.956.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Armel Nicolas
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; 2-pyrrolidone-5-carboxylic acid (Gln); phosphorylated residue; acetylated residue; monohydroxylated residue; deamidated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-18 04:59:47	ID requested
1	2024-05-22 01:17:53	announced
⏵ 2	2024-10-22 06:40:57	announced	2024-10-22: Updated project metadata.

Hansen AH, Pauler FM, Riedl M, Streicher C, Heger A, Laukoter S, Sommer C, Nicolas A, Hof B, Tsai LH, R, ü, licke T, Hippenmeyer S, Tissue-Wide Effects Override Cell-Intrinsic Gene Function in Radial Neuron Migration. Oxf Open Neurosci, 1():kvac009(2022) [pubmed]

10.1093/oons/kvac009;

submitter keyword: Mus musculus, Brain, FACS sorted

Simon Hippenmeyer
contact affiliation	IST (Institute of Science and Technology) Austria, Klosterneuburg, Lower Austria, Austria
contact email	simon.hippenmeyer@ist.ac.at
lab head
Armel Nicolas
contact affiliation	IST Austria
contact email	armel.nicolas@ist.ac.at
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/2024/05/PXD023222

PRIDE project URI

• PRIDE
  1. PXD023222
     1. Label: PRIDE project
     2. Name: Cdk5r1_KO_TMT-10plex_brain_cell-autonomous_proteomics