PXD048709

PXD048709 is an original dataset announced via ProteomeXchange.

Title	A proteogenomics study using the Seer Proteograph platform
Description	In recent years, the development of molecular clocks has provided avenues for estimation of biological age. Traditionally, methylation-based epigenetic clocks have been the focus of age predictor developments, however individual proteomics, transcriptomics, and ATAC-Seq have provided avenues for other omic based clocks. However, the current limitation is the development of multi-omic clocks which are able to capture multiple facets of the central dogma to develop composite epigenetic clocks. To this end, the current project incorporates proteomic data from a pool of 2,000 samples which were incorporated into the development of a multi-omic informed epigenetic predictor. Here, we utilized the Seer ProteographTM platform to prepare protein reads from plasma samples collected from a pool of individuals collected from the Mass General Brigham's (MGB) Biobank, and then quantified using LC-MS, and analyzed using the software available from Seer. Additional QA/QC and normalization was conducted using in-house analytical scripts.
HostingRepository	PRIDE
AnnounceDate	2025-10-16
AnnouncementXML	Submission_2025-10-16_12:15:21.801.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Harendra Guturu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-19 03:43:29	ID requested
⏵ 1	2025-10-16 12:15:22	announced

Dataset with its publication pending

submitter keyword: gwas,proteomics, mass spectrometry, genome-wide association studies, protein quantitative trait loci, pqtl, Proteograph™ workflow

Varun Dwaraka
contact affiliation	Bioinformatics, TruDiagnostic, USA
contact email	varun@trudiagnostic.com
lab head
Harendra Guturu
contact affiliation	Seer, Inc.
contact email	hguturu@seer.bio
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/2025/09/PXD048709

PRIDE project URI

• PRIDE
  1. PXD048709
     1. Label: PRIDE project
     2. Name: A proteogenomics study using the Seer Proteograph platform