⮝ Full datasets listing
PXD067103-1
PXD067103 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | DIA workflow optimization with 3 species for low input |
| Description | we systematically evaluated multiple factors in low-input DIA workflows on an Astral MS, including MS acquisition parameters, data analysis software (DIA-NN, Spectronaut, and FragPipe), LC separation gradient lengths, database searching algorithms, and protein quantification approaches. Using three-species proteome samples (human, yeast, and E. coli) with total input ranging from 0.1 ng to 10 ng and predefined quantity ratios, we focused on proteome coverage, quantification accuracy, and precision, which are the most important considerations when applying these methods in biological applications. Our evaluation suggested a preferred DIA workflow for low-input samples, which involves using a FAIMS interface, DIA-NN-based library-free database search with the enabled match between runs (MBR) function, and MS1-level protein quantification with the maxLFQ algorithm. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-01-23 |
| AnnouncementXML | Submission_2026-01-23_14:42:11.337.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Zhichang Yang |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; scientific name: Escherichia coli; common name: E. coli; NCBI TaxID: 562; scientific name: Saccharomyces cerevisiae; common name: baker's yeast; NCBI TaxID: 4932; |
| ModificationList | unknown modification |
| Instrument | Orbitrap Astral |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-08-07 16:54:09 | ID requested | |
| ⏵ 1 | 2026-01-23 14:42:11 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: DIA, low input, Astral, 3species, DatasetType:Proteomics |
Contact List
| Ying Zhu | |
|---|---|
| contact affiliation | Pacific Northwest National Laboratory |
| contact email | ying.zhu@pnnl.gov |
| lab head | |
| Zhichang Yang | |
| contact affiliation | Genentech |
| contact email | yang.zhichang@gene.com |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive-ftp.ucsd.edu/v10/MSV000098763/ |
