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PXD051706

PXD051706 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleNovel protocol for spatial proteome analysis of microdissected formalin-fixed paraffin-embedded tissues
DescriptionNovel In-insert FFPE proteomics combines single glass insert FFPE tissue processing with spatial quantitative data-independent mass spectrometry (DIA). The method represents a potent protocol for spatial FFPE tissue subsection processing in combination with laser capture microdissection, achieving sufficient MS signal from 50 um size mammary acini FFPE voxels. By eliminating additional robotic platforms, desalting and detergent removal steps prior to injection to the liquid chromatograph, this method minimizes protein losses and keep the analysis cost effective. In-insert proteomics maintains sufficient sensitivity to preserve spatial context within a single FFPE tissue slide. This project aim was to acquire data-dependent data (DDA) on Exploris 480 to demonstrate the sensitivity of the In-insert protocol sensitivity and benchmark it with intersecting protocol published by Weke et al. (2022).
HostingRepositoryPRIDE
AnnounceDate2024-06-03
AnnouncementXMLSubmission_2024-06-03_11:28:50.390.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterJakub Faktor
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListacetylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-04-24 07:52:39ID requested
12024-06-03 11:28:50announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: Human, limited proteomics, breast tissue, formalin-fixed paraffin-embedded tissue, mammary acini, Exploris 480, laser capture microdissection, spatial proteomics
Contact List
Sachin Kote
contact affiliationInternational Centre for Cancer Vaccine Science, University of Gdansk, Kladki 24, Gdansk, Poland
contact emailsachin.kote@ug.edu.pl
lab head
Jakub Faktor
contact affiliationUniversity of Gdansk Kladki 24 Gdansk
contact emailjakub.faktor@ug.edu.pl
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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