PXD022827-1
PXD022827 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics |
Description | Large numbers of cells are generally required for quantitative global proteome profiling due to the significant surface adsorption losses associated with sample processing. Such bulk measurement obscures important cell-to-cell variability (cell heterogeneity) and makes proteomic profiling impossible for rare cell populations (e.g., circulating tumor cells (CTCs)). Here we report a surfactant-assisted one-pot sample preparation coupled with mass spectrometry (MS) termed SOP-MS for label-free global single-cell proteomics. SOP-MS capitalizes on the combination of a MS-compatible nonionic surfactant, n-Dodecyl-β-D-maltoside, and hydrophobic surface-based low-bind tubes or multi-well plates for ‘all-in-one’ one-pot sample preparation. This ‘all-in-one’ method including elimination of all sample transfer steps maximally reduces surface adsorption losses for effective processing of single cells, thus significantly improving detection sensitivity for single-cell proteomics. This method allows convenient label-free quantification of hundreds of proteins from single human cells and ~1200 proteins from small tissue sections (close to ~20 cells). When applied to a patient CTC-derived xenograft (PCDX) model at the single-cell resolution, SOP-MS can reveal distinct protein signatures between primary tumor cells and early metastatic lung cells, which are related to the selection pressure of anti-tumor immunity during breast cancer metastasis. The approach paves the way for routine, precise, quantitative single-cell proteomics. |
HostingRepository | PanoramaPublic |
AnnounceDate | 2020-11-30 |
AnnouncementXML | Submission_2020-11-30_20:24:16.xml |
DigitalObjectIdentifier | |
ReviewLevel | Non peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Tujin Shi |
SpeciesList | scientific name: Homo sapiens; NCBI TaxID: 9606; |
ModificationList | Carbamidomethyl; Label:13C(6)15N(2); Label:13C(6)15N(4) |
Instrument | TSQ Vantage |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2020-11-30 19:49:44 | ID requested | |
⏵ 1 | 2020-11-30 20:24:17 | announced | |
2 | 2021-03-11 11:07:49 | announced | : Added publication |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Surfactant-assisted one-pot sample preparation coupled with MS (SOP-MS), single-cell proteomics, nonionic surfactant, single cells, patient CTC-derived xenograft (PCDX) |
Contact List
Tujin Shi | |
---|---|
contact affiliation | Pacific Northwest National Laboratory |
contact email | tujin.shi@pnnl.gov |
lab head | |
Tujin Shi | |
contact affiliation | Pacific Northwest National Laboratory |
contact email | tujin.shi@pnnl.gov |
dataset submitter |
Full Dataset Link List
Panorama Public dataset URI |