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PXD011216

PXD011216 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteomics identifies potential biomarkers and implicates the granin family in Parkinson’s disease
DescriptionParkinson’s disease (PD) is the second most common neurodegenerative disorder. Treatments are available to address PD motor symptoms, but not disease progression or cognitive decline. Demonstrating disease modification in clinical trials is still a substantial challenge because of the high disease heterogeneity and variability in progression as well as subjectivity in clinical scoring. To develop novel therapeutics for PD, there is an urgent need to identify biomarkers for patient stratification in clinical trials. In this study, we used cutting edge data-independent acquisition (DIA) mass spectrometry to identify PD-specific biomarkers in patient cerebrospinal fluid (CSF). To identify novel biomarkers with minimal false discovery, two independent cohorts were analyzed by DIA mass spectrometry. An initial discovery cohort of 53 PD and 72 control (CTRL) patient samples was analyzed, identifying 53 proteins with significant changes (nominal p-value ≤ 0.05) in PD relative to CTRL out of the 342 detectable proteins. A second cohort of 28 PD and 43 CTRL samples were analyzed as above and identified 41 proteins with significant changes in PD. Thirteen proteins showed significant changes in both cohorts, some of which are previously reported to be altered in PD (i.e., EPHA4 and SERPINC1). Three members of a specific protein family, which are cleaved into bioactive peptides, were amongst these 13 proteins . Further, peptide-level quantification of the detectable members of this protein family (7 total) revealed that specific regions of all 7 proteins are decreased in Parkinson’s disease samples. Together, these data may implicate altered processing, localization, and/or function of this entire protein family for the first time in PD.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:49:01.091.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterPablo Sardi
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListphosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-09-28 05:51:40ID requested
12020-02-18 06:53:10announced
22024-10-22 04:49:05announced2024-10-22: Updated project metadata.
Publication List
Rotunno MS, Lane M, Zhang W, Wolf P, Oliva P, Viel C, Wills AM, Alcalay RN, Scherzer CR, Shihabuddin LS, Zhang K, Sardi SP, Cerebrospinal fluid proteomics implicates the granin family in Parkinson's disease. Sci Rep, 10(1):2479(2020) [pubmed]
Bhat SA, Ahmad SM, Ibeagha-Awemu EM, Mobashir M, Dar MA, Mumtaz PT, Shah RA, Dar TA, Shabir N, Bhat HF, Ganai NA, Comparative milk proteome analysis of Kashmiri and Jersey cattle identifies differential expression of key proteins involved in immune system regulation and milk quality. BMC Genomics, 21(1):161(2020) [pubmed]
10.1038/s41598-020-59414-4;
10.1186/s12864-020-6574-4;
Keyword List
curator keyword: Biomedical
submitter keyword: cerebrospinal fluid,Parkinson's, CSF, Proteomics, biomarkers
Contact List
Sergio Pablo Sardi
contact affiliationCNS Genetic Diseases Research, Neuroscience Therapeutic Area, Sanofi, Inc., Framingham, MA 01701
contact emailpablo.sardi@sanofi.com
lab head
Pablo Sardi
contact affiliationSanofi
contact emailpablo.sardi@sanofi.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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