PXD005634

PXD005634 is an original dataset announced via ProteomeXchange.

Title	Correlation profiling of synaptic sub-fraction proteomes of the mouse brain hippocampus, cortex and cerebellum
Description	Synaptic transmission forms the main mode of signaling and information integration in the nervous system. Here, we identified and quantified proteins from three brain regions and five biochemical synapse sub-fractions. We identified around 4500 proteins in total, of which about 2000 proteins each were quantified from microsome, P2 fraction, synaptosome, synaptic membrane, and postsynaptic density (PSD). Correlation profiling using these data sets identified synaptic functional groups and showed enrichment of canonical presynaptic proteins in synaptosome, and canonical postsynaptic proteins in PSD. In addition, we detected profound brain region specific differences in the extent of enrichment for some functionally associated proteins, exemplified by different AMPAR subunits and the large differences in spatial distribution of their potential interactors. Furthermore, we revealed novel PSD proteins PLEKHA5 and ADGRA1, which using super-resolution microscopy on primary neuronal culture were confirmed to reside in the PSD.
HostingRepository	PRIDE
AnnounceDate	2017-09-25
AnnouncementXML	Submission_2017-10-12_01:42:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Frank Koopmans
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	S-carboxamidoethyl-L-cysteine
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2017-01-02 07:52:11	ID requested
1	2017-09-25 01:03:16	announced
⏵ 2	2017-10-12 01:42:10	announced	Updated publication reference for PubMed record(s): 28935861.

Pandya NJ, Koopmans F, Slotman JA, Paliukhovich I, Houtsmuller AB, Smit AB, Li KW, Correlation profiling of brain sub-cellular proteomes reveals co-assembly of synaptic proteins and subcellular distribution. Sci Rep, 7(1):12107(2017) [pubmed]

curator keyword: Biological

submitter keyword: Synapse, correlation profiling, proteomics, post synaptic density

Ka Wan Li
contact affiliation	Department of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University, Amsterdam, The Netherlands
contact email	k.w.li@vu.nl
lab head
Frank Koopmans
contact affiliation	VU University
contact email	frank.koopmans@vu.nl
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/2017/09/PXD005634

PRIDE project URI

• PRIDE
  1. PXD005634
     1. Label: PRIDE project
     2. Name: Correlation profiling of synaptic sub-fraction proteomes of the mouse brain hippocampus, cortex and cerebellum