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PXD072373
PXD072373 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Improved surfactant-assisted one-pot sample preparation for robust convenient single cell proteomics |
| Description | Recent advances in mass spectrometry-based single-cell proteomics (SCP) have revolutionized the SCP field for comprehensive characterization of cellular heterogeneity. However, current SCP approaches generally employ sub-µL to 1 µL sample processing volume using either ultralow-volume specialized devices or a 384-well plate by frequently adding water to compensate evaporation, which greatly limits their broad accessibility and robustness. Here we report a robust convenient SCP method termed iSOP (improved Surfactant-assisted One-Pot processing) for processing of single cells at low µL volume using 384-well plate with tight sealing to avoid sample drying loss. This iSOP SCP method was built upon our previously developed SOP method by systematic optimization of processing conditions in a low-volume 384-well plate. After optimization, 3 µL was selected as processing volume with a mixture of trypsin and Lys-C enzymes (2 ng for each). With a commonly accessible LC-MS platform, iSOP-MS quantified ~1,200–1,800 protein groups from single HeLa or MCF7 cells. Application of iSOP-MS to two neuroblastoma cell lines has enabled reliable identification of an average of ~1,700 and ~2,050 protein groups from single BE2-C and SK-N-SH cells, respectively, and precise characterization of cellular heterogeneity. Overall, iSOP-MS provides a robust and convenient platform for routine, cost-effective, quantitative SCP analysis. |
| HostingRepository | jPOST |
| AnnounceDate | 2026-05-30 |
| AnnouncementXML | Submission_2026-05-29_11:25:24.829.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Reta Birhanu Kitata |
| SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
| ModificationList | alpha-amino acetylated residue; L-methionine sulfoxide; unknown modification |
| Instrument | LTQ Orbitrap |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-12-23 16:47:50 | ID requested | |
| ⏵ 1 | 2026-05-29 11:25:25 | announced |
Publication List
| Dataset with its publication pending |
Keyword List
| submitter keyword: iSOP-MS, single cell proteomics (SCP), cellular heterogeneity, low µL processing volume, 384-well plate |
Contact List
| Tujin Shi and Reta Birhanu Kitata | |
|---|---|
| lab head | |
| Reta Birhanu Kitata | |
| contact affiliation | PNNL |
| dataset submitter | |
Full Dataset Link List
| jPOST 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://ftp.jpostdb.org/JPST004277/ |
