PXD066881

PXD066881 is an original dataset announced via ProteomeXchange.

Title	Top-Down Mass Spectrometry of a Clinical Antibody Light Chain Using the Omnitrap-Orbitrap-Booster Platform
Description	The Omnitrap-Orbitrap-Booster (OOB) mass spectrometry (MS) platform was developed to advance top-down (TD) MS analysis of proteins. It integrates a multimodal tandem mass spectrometry (MS/MS) ion trap system (OmnitrapTM), a high-resolution Orbitrap Fourier transform mass spectrometer (FTMS), and a high-performance data acquisition system (FTMS Booster) to improve fragmentation efficiency and spectral quality by increasing the signal-to-noise (S/N) ratio of product ions. In this study, we evaluate the OOB platform for electron capture dissociation (ECD)-based TD MS analysis of a clinical multiple myeloma antibody light chain (P15), benchmarking its performance against the “gold-standard” electron transfer dissociation (ETD)- based TD MS on an Orbitrap EclipseTM. Single precursor charge state analysis yielded comparable sequence coverage (68.2% vs. 74.3%) between ECD-based TD MS on OOB and ETD-based TD MS on EclipseTM. Notably, ECD exhibits lower spectral peak density (i.e., reduced spectral congestion) due to reduced redundancy of product ions. Furthermore, leveraging multiple precursor charge states (15+ to 19+) analysis consecutively across triplicate LC-MS/MS run on the OOB platform enhances sequence coverage to 93%, demonstrating its capacity for comprehensive protein characterization. These results establish the OOB platform as a powerful and efficient tool for TD MS of proteins.
HostingRepository	PRIDE
AnnounceDate	2026-04-13
AnnouncementXML	Submission_2026-04-13_08:53:32.517.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marie Yammine
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse; Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-08-02 06:31:03	ID requested
⏵ 1	2026-04-13 08:53:33	announced

10.1021/JASMS.5C00256;

ProteomeXchange project tag: Antibodies (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

submitter keyword: mAb

electron capture dissociation, ECD

absorption mode Fourier transform

FTMS Booster,monoclonal antibody

Julia Chamot-Rooke
contact affiliation	UAR 2024 CNRS Mass Spectrometry for Biology Unit Institut Pasteur
contact email	julia.chamot-rooke@pasteur.fr
lab head
Marie Yammine
contact affiliation	Institut Pasteur
contact email	marie.yammine@pasteur.fr
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/2026/04/PXD066881

PRIDE project URI

• PRIDE
  1. PXD066881
     1. Label: PRIDE project
     2. Name: Top-Down Mass Spectrometry of a Clinical Antibody Light Chain Using the Omnitrap-Orbitrap-Booster Platform