PXD047159

PXD047159 is an original dataset announced via ProteomeXchange.

Title	Prefrontal cortical synaptoproteome profile combined with machine learning predict resilience towards chronic social isolation in rats
Description	Chronic social isolation (CSIS), an animal model of depression, generates two stress-response phenotypes: CSIS-resilient and CSIS-susceptible. However, the molecular mechanism underlying resilience to CSIS remains unclear. We aimed to investigate the prefrontal cortical synaptoproteome profile between CSIS-resilient, CSIS-susceptible and control rats in order to identify predictive proteins for the resilience phenotype. Comparison of CSIS-resilient versus CSIS-susceptible rats revealed downregulated glycolysis intermediate Aldoc and upregulated Cltc, Cam2a, Syn and Fasn proteins involved in neuronal transmission, synaptic vesicle trafficking and fatty acid synthesis. Comparison of CSIS-resilient and control rats revealed downregulated mitochondrial proteins Atp5f1b and Cs, and upregulated Prkcg, Slc17a7, and Sv2a proteins involved in signal transduction and synaptic trafficking. These proteins make the animal groups linearly separable, and 100% validation accuracy is achieved by standard machine learning models. In addition, we identified the most significant proteins for discriminating CSIS-resilient vs. CSIS-susceptible or control rats by using Support Vector Machine with greedy forward search and Random Forest, resulting in four panels of discriminative proteins. Proteomics-data-driven machine learning algorithms can provide a platform for accessing predictive features and provide additional insight into the molecular mechanisms of synaptic neurotransmission involved in stress resilience.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:37:07.525.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD047159
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Dragana Filipovic
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-22 02:36:44	ID requested
1	2024-04-23 05:18:40	announced
⏵ 2	2024-10-22 06:37:08	announced	2024-10-22: Updated project metadata.

Filipovi, ć D, Novak B, Xiao J, Tadi, ć P, Turck CW, Prefrontal cortical synaptoproteome profile combined with machine learning predicts resilience towards chronic social isolation in rats. J Psychiatr Res, 172():221-228(2024) [pubmed]

10.1016/j.jpsychires.2024.02.042;

10.6019/PXD047159;

submitter keyword: Resilience, Prefrontal cortex, Proteomics, Machine learning,Chronic social isolation, Synaptosome

Dragana Filipović
contact affiliation	Department of Molecular Biology and Endocrinology, “VINČA”, Institute of Nuclear Sciences - National Institute of thе Republic of Serbia, University of Belgrade, Belgrade, Serbia
contact email	dragana@vinca.rs
lab head
Dragana Filipovic
contact affiliation	Institute of Nuclear Sciences - National Institute of thе Republic of Serbia, University of Belgrade, Belgrade, Serbia
contact email	dragana@vinca.rs
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/2024/04/PXD047159

PRIDE project URI

• PRIDE
  1. PXD047159
     1. Label: PRIDE project
     2. Name: Prefrontal cortical synaptoproteome profile combined with machine learning predict resilience towards chronic social isolation in rats