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PXD053023

PXD053023 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleElectrophoresis-Correlative Framing of Ion Mobility Deepens Single-Cell Mass Spectrometry Proteomics
DescriptionThis project developed electrophoresis-correlative (Eco) mass spectrometry (MS) to measure the proteome of single cells on a trapped ion mobility mass spectrometer (timsTOF PRO). Eco-MS identified 962 protein groups in a <20 min of electrophoresing a single-HeLa-cell-equivalent (~200 pg) proteome amount. Match-between-runs improved this number to 2,139 protein groups on the same dataset. We demonstrate the approach to measure the proteome of single cells in X. laevis embryos at stage 8 (blastula). Single cells were isolated from the animal cap and their proteomes digested on a fluorosilane-coated microplate. Less than 4% of the available single-cell proteome was analyzed on a custom-built capillary electrophoresis (CE) platform under classical and Eco-driven ddaPASEF. Eco-MS returned ~51% of more protein groups than the control, identifying 1,157 proteins from N = 9 different single cells (biological replicates) of the animal cap. Eco-MS deepens the detectable coverage of the single-cell proteome using ddaPASEF on a timsTOF MS.
HostingRepositoryPRIDE
AnnounceDate2025-02-06
AnnouncementXMLSubmission_2025-02-06_07:44:14.529.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterPeter Nemes
SpeciesList scientific name: Xenopus laevis (African clawed frog); NCBI TaxID: 8355; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumenttimsTOF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-06-11 12:16:32ID requested
12025-02-06 07:44:14announced
Publication List
10.1016/J.MCPRO.2024.100892;
Keyword List
submitter keyword: proteomics, Xenopus laevis, mass spectrometry,Single cell, capillary electrophoresis
Contact List
Peter Nemes
contact affiliationDepartment of Chemistry & Biochemistry, University of Maryland at College Park
contact emailnemes@umd.edu
lab head
Peter Nemes
contact affiliationUniversity of Maryland, College Park
contact emailnemes@umd.edu
dataset submitter
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Dataset FTP location
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