PXD044460-1

PXD044460 is an original dataset announced via ProteomeXchange.

Title	Quantitative and Kinetic Proteomics Reveal ApoE Isoform-dependent Proteostasis Adaptations in Mouse Brain
Description	Apolipoprotein E (ApoE) polymorphisms modify the risk of neurodegenerative disease. To elucidate how ApoE isoforms alter the proteome, we applied in vivo deuterium isotope labeling to transgenic mice modified to express the human ApoE gene (isoform 2, 3, or 4). We employed liquid-chromatography and mass-spectrometry which allowed us to simultaneously measure relative protein concentration and track the incorporation of heavy isotopes over a 32-day period. The conjunction of turnover data with concentration measurements provides insight as to how ApoE isoforms affect the synthesis and degradation of a wide variety of proteins. We tested the homeostatic regulation of >2700 ontologies and quantified significant isoform-dependent changes which link ApoE genotype to modulation of mitochondrial components, oxidative phosphorylation, and maintenance of protein quality. Here we demonstrate the application of turnover rate measurement to further characterize concentration changes and provide opportunities for further exploration into disease pathology. (Zuniga 2023)
HostingRepository	PRIDE
AnnounceDate	2024-11-26
AnnouncementXML	Submission_2024-11-25_17:21:57.123.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	John Price
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-08 20:08:21	ID requested
⏵ 1	2024-11-25 17:21:57	announced

10.1371/JOURNAL.PCBI.1012407;

submitter keyword: Mouse, Brain, LC-MS, Proteomics

John Calvin
contact affiliation	Price Lab, Chemistry and Biochemistry, Brigham Young University, United States of America
contact email	jcprice@chem.byu.edu
lab head
John Price
contact affiliation	Brigham Young University
contact email	drjohncprice@gmail.com
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/2024/11/PXD044460

PRIDE project URI

• PRIDE
  1. PXD044460
     1. Label: PRIDE project
     2. Name: Quantitative and Kinetic Proteomics Reveal ApoE Isoform-dependent Proteostasis Adaptations in Mouse Brain