PXD044714 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Spatial Proteomics of a Human Brain Tumour at 40 µm resolution |
Description | The spatial organisation of Cellular protein expression profiles within tissues determines cellular function and are key to understanding disease pathology. To define molecular phenotypes in the spatial context of tissue, there is a need for unbiased, quantitative technology capable of mapping proteomes within tissue structures. Here, we present a workflow for spatially resolved, quantitative proteomics of tissue that generates maps of protein expression across a tissue slice derived from a human atypical teratoid-rhabdoid tumour (AT/RT). We employ spatially-aware statistical methods that do not require prior knowledge of the fine tissue structure to detect proteins and pathways with varying spatial abundance patterns. We identified PYGL, ASPH and CD45 as spatial markers for tumour boundary and reveal immune response driven, spatially organized protein networks of the extracellular tumour matrix. Overall, this work informs on methods for spatially resolved deep proteo-phenotyping of tissue heterogeneity, which will push the boundaries of understanding tissue biology and pathology at the molecular level. |
HostingRepository | PRIDE |
AnnounceDate | 2023-10-10 |
AnnouncementXML | Submission_2023-10-10_09:33:56.370.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | SimonDavis |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | timsTOF SCP |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-08-21 21:47:21 | ID requested | |
⏵ 1 | 2023-10-10 09:33:56 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Spatial Proteomics, Laser Capture Microdissection,roteomics |
Contact List
RomanFischer |
contact affiliation | Discovery Proteomics Lab, University of Oxford |
contact email | roman.fischer@ndm.ox.ac.uk |
lab head | |
SimonDavis |
contact affiliation | University of Oxford |
contact email | simon.davis2@ndm.ox.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/2023/10/PXD044714 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD044714
- Label: PRIDE project
- Name: Spatial Proteomics of a Human Brain Tumour at 40 µm resolution