PXD056871

PXD056871 is an original dataset announced via ProteomeXchange.

Title	Nanocarrier imaging at single-cell resolution across entire mouse bodies with deep learning
Description	Efficient and accurate nanocarrier development for targeted drug delivery is hindered by the inability to analyze cell-level biodistribution across intact whole organisms. We introduce SCP-Nano (Single Cell Precision Nanocarrier Identification), a deep learning pipeline designed to quantify the targeting of millions of cells by nanocarriers in whole-mouse bodies imaged at cellular resolution. SCP-Nano revealed the tissue distribution patterns of lipid nanoparticles (LNPs) following different injection routes at doses as low as 0.0005 mg/kg—far below the detection limits of conventional whole-body imaging techniques. Notably, we demonstrated that LNPs carrying SARS-CoV-2 spike mRNA reach heart tissue, leading to changes in the heart's protein composition that suggest immune activation and possible blood vessel damage. Additionally, we showed that SCP-Nano can analyze various types of nanocarriers, including liposomes, polyplexes, DNA origami, and adeno-associated viruses (AAVs). SCP-Nano's high sensitivity enables accurate 3D mapping of nanocarrier distribution throughout mouse bodies, even detecting very low levels in unexpected tissues. SCP-Nano is poised to accelerate the development of precise and safe nanocarrier-based therapeutics.
HostingRepository	PRIDE
AnnounceDate	2024-12-06
AnnouncementXML	Submission_2024-12-06_12:30:47.743.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ali Erturk
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF SCP

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-16 13:17:31	ID requested
⏵ 1	2024-12-06 12:30:48	announced

Dataset with its publication pending

submitter keyword: Tissue clearing, Single-cell resolution,Whole-body Imaging, AI, Nanocarriers

Prof. Ali
contact affiliation	Helmholtz Munich
contact email	ali.erturk@helmholtz-munich.de
lab head
Ali Erturk
contact affiliation	Institute for Tissue Engineering and Regenerative Medicine, Helmholtz Munich
contact email	ali.erturk@helmholtz-munich.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/2024/12/PXD056871

PRIDE project URI

• PRIDE
  1. PXD056871
     1. Label: PRIDE project
     2. Name: Nanocarrier imaging at single-cell resolution across entire mouse bodies with deep learning