PXD001250-3

PXD001250 is an original dataset announced via ProteomeXchange.

Title	Cell-type and brain-region resolved mouse brain proteome
Description	To understand the complexity of the brain, connectome and transcriptome maps of high resolution are being generated, but an equivalent catalogue of the brain proteome is lacking. To provide a starting point, we have performed an in-depth proteome analysis of the adult mouse brain, its major regions and cell types, which resulted in the so far largest collection of cell-type resolved protein expression data of the brain. Comparisons of the 12,934 identified proteins in oligodendrocytes, astrocytes, microglia and cortical neurons with deep sequencing data of the transcriptome indicated deep coverage of the proteome. We identified novel protein makers for different cell type and brain regions. These were validated either directly such as in case of cell types or by comparative analysis against Allen mouse brain atlas. The utility and the power of the resource were demonstrated by the identification of Lsamp, an adhesion molecule of the IgLON family, as a negative regulator of myelination in a subpopulation of neurons. Our in-depth proteome analysis of CNS cell types provides a framework towards a system-level understanding of cell type diversity in the CNS and serves as a rich resource to the neuroscience community for the better understanding of brain development and function.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:03:05.731.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mario Oroshi
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2014-08-20 01:28:09	ID requested
1	2015-10-29 05:13:29	announced
2	2015-11-20 03:10:46	announced	Updated publication reference for PubMed record(s): 26523646.
⏵ 3	2024-10-22 04:03:07	announced	2024-10-22: Updated project metadata.

10.1038/nn.4160;

Sharma K, Schmitt S, Bergner CG, Tyanova S, Kannaiyan N, Manrique-Hoyos N, Kongi K, Cantuti L, Hanisch UK, Philips MA, Rossner MJ, Mann M, Simons M, Cell type- and brain region-resolved mouse brain proteome. Nat Neurosci, 18(12):1819-31(2015) [pubmed]

ProteomeXchange project tag: deep learning, benchmarking, machine learning, immunopeptidomics

curator keyword: Biological

submitter keyword: Brain Regions,Mouse, Brain, Neuron, Q Exactive, CNS, Oligodendrocyte, Microglia, Astrocyte

Prof. Dr. Matthias Mann
contact affiliation	Dept. Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Munich, Germany
contact email	mmann@biochem.mpg.de
lab head
Mario Oroshi
contact affiliation	Proteomics
contact email	oroshi@biochem.mpg.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/2015/10/PXD001250

PRIDE project URI

• PRIDE
  1. PXD001250
     1. Label: PRIDE project
     2. Name: Cell-type and brain-region resolved mouse brain proteome