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PXD064536

PXD064536 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleEvaluation of a modified Orbitrap Astral Zoom prototype for quantitative proteomics - Beyond identification lists
DescriptionMass spectrometry instrumentation continues to evolve rapidly, yet quantifying these advances beyond conventional peptide and protein detections remains challenging. Here, we evaluate a modified Orbitrap Astral Zoom mass spectrometer (MS) prototype and compare its performance to the standard Orbitrap Astral MS. Across a range of acquisition methods and sample inputs, the prototype instrument outperformed the standard Orbitrap Astral MS in precursor and protein identifications, ion accumulation efficiency, and reproducibility of measurements. To enable meaningful cross-platform comparisons, we implemented an ion calibration framework that converts signal intensity from arbitrary units to absolute ion counts (ions/sec). This benchmarking strategy showed that the prototype consistently sampled more ions per peptide, resulting in improved sensitivity and quantitative precision. To make these metrics broadly accessible, we added new metrics to the Skyline document grid to report ion counts directly from data-independent acquisition (DIA) data. Taken together, our results demonstrate the Orbitrap Astral Zoom prototype as a high-performance platform for DIA proteomics and establish a generalizable framework for ion-based evaluation of mass spectrometer performance.
HostingRepositoryPanoramaPublic
AnnounceDate2025-06-08
AnnouncementXMLSubmission_2025-06-08_17:44:31.498.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterChris Hsu
SpeciesList scientific name: Homo sapiens; NCBI TaxID: 9606; scientific name: Gallus gallus; NCBI TaxID: 9031;
ModificationListCarbamidomethyl
InstrumentOrbitrap Astral; Orbitrap Astral Zoom; Stellar; Orbitrap Exploris 480; Orbitrap Ascend; Orbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02025-06-02 21:25:19ID requested
12025-06-08 17:44:31announced
Publication List
Hsu C, Shulman N, Stewart H, Petzoldt J, Pashkova A, Plubell D, Denisov E, Hagedorn B, Damoc E, MacLean BX, Remes P, Canterbury J, Makarov A, Hock C, Zabrouskov V, Wu CC, MacCoss MJ. Evaluation of a prototype Orbitrap Astral Zoom mass spectrometer for quantitative proteomics – Beyond identification lists. bioRxiv [Internet]. 2025 Jan 1;2025.05.30.657132. Available from: http://biorxiv.org/content/early/2025/06/02/2025.05.30.657132.abstract
Keyword List
submitter keyword: ions, calibration, poisson statistics, astral, astral zoom, instrument comparison
Contact List
Michael MacCoss
contact affiliationUniversity of Washington
contact emailmaccoss@uw.edu
lab head
Chris Hsu
contact affiliationUniversity of Washington
contact emailchrhsu@uw.edu
dataset submitter
Full Dataset Link List
Panorama Public dataset URI