⮝ Full datasets listing
PXD068359
PXD068359 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Patch-Clamp Single-Cell Proteomics of Rat Prefrontal Cortex Neurons |
| Description | This dataset supports a study introducing a framework for patch-clamp single-cell proteomics (patch-SCP) in acute rat brain slices. Patch-SCP combines whole-cell electrophysiology with mass spectrometry to directly link neuronal excitability with molecular composition. We systematically analyzed neurons from layer 2/3 of the medial prefrontal cortex (mPFC) using a shotgun retrieval strategy in which all patched cells were collected, regardless of electrophysiological outcome. Retrieval outcomes included neurons with preserved gigaseals, neurons that lost the gigaseal during soma withdrawal, neurons without gigaseals (collected without electrophysiological recordings), and torn/aspirated neurons. Electrophysiological parameters such as capacitance, resistance, and spiking were recorded where possible. Each retrieved soma was processed using a single-cell surfactant-based workflow (DDM lysis, one-pot digestion in low-bind plates) and analyzed by nanoLC coupled to an Orbitrap Astral mass spectrometer operating in DIA mode. The dataset contains raw DIA files, DIA-NN search outputs, and annotated metadata linking each cell to its retrieval outcome and electrophysiological properties. Together, these data provide a resource for evaluating how neuron size, retrieval quality, and physiological characterization influence single-cell proteomic recovery in acute brain slices. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-03-17 |
| AnnouncementXML | Submission_2026-03-17_11:26:22.882.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Larry Rodriguez |
| SpeciesList | scientific name: Rattus norvegicus; common name: Norway rat; NCBI TaxID: 10116; |
| ModificationList | Oxidation |
| Instrument | Orbitrap Astral |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-09-14 09:32:17 | ID requested | |
| ⏵ 1 | 2026-03-17 11:26:23 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: rattus norvegicus, medial prefrontal cortex, acute brain slice, pyramidal neuron, patch-clamp electrophysiology, single-cell proteomics, neuron retrieval, data-independent acquisition, Orbitrap Astral, ion channels, GPCRs, synaptic proteins, DatasetType:Proteomics |
Contact List
| John Yates | |
|---|---|
| contact affiliation | The Scripps Research Institute |
| contact email | jyates@scripps.ed |
| lab head | |
| Larry Rodriguez | |
| contact affiliation | the Scripps Research Institute |
| contact email | lrodriguez@scripps.edu |
| 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/MSV000099156/ |
