PXD019712

PXD019712 is an original dataset announced via ProteomeXchange.

Title	Nanoproteomics enables proteoform-resolved analysis of low-abundance proteins in human serum
Description	Top-down mass spectrometry (MS)-based proteomics provides a comprehensive analysis of proteoforms to achieve a proteome-wide understanding of protein functions. However, the MS detection of low-abundance proteins from the blood remains an unsolved challenge due to the complexity and extraordinary dynamic range of the blood proteome. Here we develop an integrated ‘nanoproteomics’ method coupling peptide-functionalized superparamagnetic nanoparticles (NPs) with top-down MS for the enrichment and comprehensive analysis of low-abundance cardiac troponin I (cTnI), a gold-standard biomarker for cardiovascular diseases, directly from human serum. These NPs allow for the sensitive enrichment of cTnI (< 1 ng/mL) with high specificity and reproducibility, while simultaneously depleting highly abundant blood proteins such as human serum albumin (>10 orders of magnitude more abundant than cTnI). We demonstrate for the first time that top-down nanoproteomics can provide high-resolution proteoform-resolved molecular fingerprints of diverse cTnI proteoforms to establish proteoform-pathophysiology relationships. This scalable and reproducible antibody-free strategy can generally enable the proteoform-resolved analysis of low-abundance proteins directly from serum to reveal previously unachievable molecular details.
HostingRepository	PRIDE
AnnounceDate	2020-09-11
AnnouncementXML	Submission_2020-09-11_03:34:02.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	David Roberts
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; acetylated residue; monohydroxylated residue
Instrument	maXis

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-11 01:28:21	ID requested
⏵ 1	2020-09-11 03:34:03	announced

Tiambeng TN, Roberts DS, Brown KA, Zhu Y, Chen B, Wu Z, Mitchell SD, Guardado-Alvarez TM, Jin S, Ge Y, Nanoproteomics enables proteoform-resolved analysis of low-abundance proteins in human serum. Nat Commun, 11(1):3903(2020) [pubmed]

submitter keyword: Human, Heart, Cardiac Troponin I, Serum, LC-MS, MaXis, QTOF

Ying Ge
contact affiliation	University of Wisconsin-Madison
contact email	ying.ge@wisc.edu
lab head
David Roberts
contact affiliation	University of Wisconsin-Madison
contact email	dsroberts@wisc.edu
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/2020/09/PXD019712

PRIDE project URI

• PRIDE
  1. PXD019712
     1. Label: PRIDE project
     2. Name: Nanoproteomics enables proteoform-resolved analysis of low-abundance proteins in human serum