PXD053515 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | FANS unfixed: isolation and proteomic analysis of mouse cell type-specific brain nuclei |
Description | Epigenetic-mediated gene regulation orchestrates brain cell-type gene expression programmes, and epigenetic dysregulation is a major driver of aging and disease-associated changes. Proteins that mediate gene regulation are mostly localised to the nucleus, however, nuclear-localised proteins are often under-represented in gene expression studies and have been understudied in the context of the brain. To address this challenge, we have optimised an approach for nuclei isolation that is compatible with proteomic analysis. This was coupled to a mass spectrometry protocol for detecting proteins in low-concentration samples. We have generated nuclear proteomes for neurons, microglia, and oligodendrocytes from the mouse brain cortex and identified cell-type nuclear proteins associated with chromatin structure and organisation, chromatin modifiers such as transcription factors, and RNA-binding proteins, among others. Our nuclear proteomics platform paves the way for assessing brain cell type changes in the nuclear proteome across health and disease, such as neurodevelopmental, aging, neurodegenerative, and neuroinflammatory conditions. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_06:53:43.619.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Harry Whitwell |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | monomethylated residue; monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Synapt MS |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2024-06-29 16:24:56 | ID requested | |
1 | 2024-08-09 04:11:41 | announced | |
⏵ 2 | 2024-10-22 06:53:49 | announced | 2024-10-22: Updated project metadata. |
Publication List
10.1021/acs.jproteome.4c00161; |
Bedwell L, Mavrotas M, Demchenko N, Yaa RM, Willis B, Demianova Z, Syed N, Whitwell HJ, Nott A, FANS Unfixed: Isolation and Proteomic Analysis of Mouse Cell Type-Specific Brain Nuclei. J Proteome Res, 23(9):3847-3857(2024) [pubmed] |
Keyword List
submitter keyword: cell-type specific, proteomics, neurons, FANS, microglia,epigenetics, oligodendrocytes |
Contact List
Harry Whitwell |
contact affiliation | Division of Systems Medicine, Imperial College London |
contact email | h.whitwell@imperial.ac.uk |
lab head | |
Harry Whitwell |
contact affiliation | Imperial College London |
contact email | h.whitwell@imperial.ac.uk |
dataset submitter | |
Full Dataset Link List
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.pride.ebi.ac.uk/pride/data/archive/2024/08/PXD053515 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD053515
- Label: PRIDE project
- Name: FANS unfixed: isolation and proteomic analysis of mouse cell type-specific brain nuclei