PXD037609-1

PXD037609 is an original dataset announced via ProteomeXchange.

Title	Novel protocol for spatial proteome analysis of formalin fixed paraffin embedded tissues
Description	Novel In-insert FFPE proteomics combines single glass insert FFPE tissue processing with spatial quantitative data-independent mass spectrometry (DIA). In-insert proteomics represents a blueprint in spatial FFPE tissue subsection processing by completely omitting the robotic platform, desalting prior to injection to the liquid chromatograph and detergent removal while restraining protein losses to the minimum. In-insert proteomics has a sufficient sensitivity to preserve spatial context within a single FFPE tissue slide. Spatial pathway regulation trends were evaluated between 17 individual breast tissue voxels by the method. Bioinformatic spatial analysis of the most dysregulated proteins was performed to reveal hotspots of certain biochemical signaling/processes. A special attention was given to cytoskeleton reorganization as an effect of hormone signaling.
HostingRepository	PRIDE
AnnounceDate	2024-04-19
AnnouncementXML	Submission_2024-04-19_09:35:46.566.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jakub Faktor
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monomethylated residue; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2022-10-20 02:35:53	ID requested
⏵ 1	2024-04-19 09:35:47	announced

Dataset with its publication pending

submitter keyword: Homo Sapiens, breast tissue, cytoskeleton, prolactin induced protein, Exploris 480, glass insert, protein quantitation, spatial proteomics, FFPE tissue, hormonal regulation, data independent mass spectrometry

Sachin Kote
contact affiliation	International Centre for Cancer Vaccine Science, University of Gdansk, Kladki 24, Gdansk, Poland
contact email	sachin.kote@ug.edu.pl
lab head
Jakub Faktor
contact affiliation	University of Gdansk Kladki 24 Gdansk
contact email	jakub.faktor@ug.edu.pl
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/2024/04/PXD037609

PRIDE project URI

• PRIDE
  1. PXD037609
     1. Label: PRIDE project
     2. Name: Novel protocol for spatial proteome analysis of formalin fixed paraffin embedded tissues