PXD034027

PXD034027 is an original dataset announced via ProteomeXchange.

Title	DISCO-MS: Proteomics of spatially identified tissues in whole organs and organisms
Description	Spatial molecular profiling of complex tissues is essential to investigate cellular function in physiological and pathological states. However, methods for molecular analysis of biological specimens imaged in 3D as a whole are lacking. Here, we present DISCO-MS, a technology combining whole-organ/ism imaging, deep learning-based image analysis, robotic tissue extraction and ultra-high sensitivity mass spectrometry. DISCO-MS yielded qualitative and quantitative proteomics data indistinguishable from uncleared samples in both rodent and human tissues. Using DISCO-MS, we investigated microglia activation along axonal tracts after brain injury and characterized early and late-stage individual amyloid-beta plaques in Alzheimer's disease mouse model. Furthermore, aided by DISCO-bot robotic extraction we studied regional proteomics heterogeneity of immune cells in intact mouse bodies and aortic plaques in whole human heart. Overall, DISCO-MS enables unbiased proteome analysis of pre-clinical and clinical tissues after unbiased imaging of entire specimens in 3D, providing new diagnostic and therapeutic opportunities for complex diseases.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:56:29.220.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Saketh Kapoor
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-23 03:39:58	ID requested
1	2022-12-23 01:53:10	announced
⏵ 2	2023-11-14 08:56:29	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: DISCO-MS, DISCI-bot

Ali Ertürk
contact affiliation	Director, Institute for Tissue Engineering and Regenerative Medicine (iTERM) Helmholtz Zentrum München Ingolstädter Landstraße 1 85764 Neuherberg Germany
contact email	erturk@helmholtz-muenchen.de
lab head
Saketh Kapoor
contact affiliation	Dr. Saketh Kapoor, Ph.D. Mass Spectrometry Unit In-Charge Institute for Tissue Engineering and Regenerative Medicine (iTERM) Helmholtz Zentrum München Ingolstädter Landstraße 1 85764 Neuherberg Germany +49 15129916548 saketh.kapoor@helmholtz-muenchen.de http://erturk-lab.com/team/
contact email	saketh.kapoor@helmholtz-muenchen.de
dataset submitter

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/2022/12/PXD034027

PRIDE project URI

• PRIDE
  1. PXD034027
     1. Label: PRIDE project
     2. Name: DISCO-MS: Proteomics of spatially identified tissues in whole organs and organisms