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PXD022827

PXD022827 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSurfactant-assisted one-pot sample preparation for label-free single-cell proteomics
DescriptionLarge 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.
HostingRepositoryPanoramaPublic
AnnounceDate2020-11-30
AnnouncementXMLSubmission_2020-11-30_20:24:16.xml
DigitalObjectIdentifier
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterTujin Shi
SpeciesList scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationListCarbamidomethyl; Label:13C(6)15N(2); Label:13C(6)15N(4)
InstrumentTSQ Vantage
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-11-30 19:49:44ID requested
12020-11-30 20:24:17announced
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 affiliationPacific Northwest National Laboratory
contact emailtujin.shi@pnnl.gov
lab head
Tujin Shi
contact affiliationPacific Northwest National Laboratory
contact emailtujin.shi@pnnl.gov
dataset submitter
Full Dataset Link List
Panorama Public dataset URI