PXD058918 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Isobaric Tagging and Data Independent Acquisition as Complementary Strategies for Proteome Profiling on an Orbitrap Astral Mass Spectrometry |
Description | Comprehensive global proteome profiling that is amenable to high throughput processing will broaden our understanding of complex biological systems. Here, we evaluated two leading mass spectrometry techniques—Data-Independent Acquisition (DIA) and Tandem Mass Tagging (TMT)—for extensive protein abundance profiling. DIA provides label-free quantification with a broad dynamic range, while TMT enables multiplexed analysis using isobaric tags for efficient cross-sample comparisons. We analyzed 18 samples, including four cell lines (IHCF, HCT116, HeLa, MCF7) under standard growth conditions, in addition to IHCF treated with two H₂O₂ concentrations, all in triplicate. Experiments were conducted on an Orbitrap Astral mass spectrometer, employing Field Asymmetric Ion Mobility Spectrometry (FAIMS). Despite utilizing different acquisition strategies, both the DIA and TMT approaches achieved comparable proteome depth and quantitative consistency, with each method quantifying over 10,000 proteins across all samples, with slightly more protein-level precision for the TMT strategy. Relative abundance correlation analysis showed strong agreement at both peptide and protein levels. Our findings highlight the complementary strengths of DIA and TMT for high-coverage proteomic studies, providing flexibility in method selection based on specific experimental needs. |
HostingRepository | PRIDE |
AnnounceDate | 2025-02-14 |
AnnouncementXML | Submission_2025-02-14_12:31:16.362.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Joao Paulo |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | monohydroxylated residue |
Instrument | Orbitrap Astral |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2024-12-16 18:28:27 | ID requested | |
⏵ 1 | 2025-02-14 12:31:16 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: FAIMS, DIA, Astral, IHCF,TMTpro |
Contact List
Joao A. Paulo |
contact affiliation | Department of Cell Biology Harvard Medical School Boston, MA, USA |
contact email | joao_paulo@hms.harvard.edu |
lab head | |
Joao Paulo |
contact affiliation | Harvard Medical School |
contact email | joao_paulo@post.harvard.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD058918
- Label: PRIDE project
- Name: Isobaric Tagging and Data Independent Acquisition as Complementary Strategies for Proteome Profiling on an Orbitrap Astral Mass Spectrometry