PXD054559

PXD054559 is an original dataset announced via ProteomeXchange.

Title	Achieving a 35plex Tandem Mass Tag Reagent Set Through Deuterium Incorporation
Description	Mass spectrometry-based sample multiplexing with isobaric tags permits the development of high-throughput and precise quantitative biological assays with proteome-wide coverage and minimal missing values. Here, we nearly double the multiplexing capability of the TMTpro reagent set to 35-plex through the incorporation of one deuterium isotope into the reporter group. Substituting deuterium frequently results in suboptimal peak co-elution, which can compromise the accuracy of reporter ion-based quantification. To counteract the impact of the deuterium effect on quantitation, we implemented a strategy that necessitated the segregation of non-deuterium and deuterium-containing channels into distinct sub-plexes during normalization procedures with reassembly through a common bridge channel. This multiplexing strategy of “design independent sub-plexes but acquire together” was used to compare protein expression differences between human cell lines and in a cysteine-profiling (e.g., chemoproteomics) experiment to identify compounds binding to cysteine-113 of Pin1.
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_11:31:34.589.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joao Paulo
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse; Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-04 09:09:08	ID requested
⏵ 1	2024-10-17 11:31:34	announced

Dataset with its publication pending

submitter keyword: ABPP, deuterium, isobaric tagging, TMTproD,TMTpro

Steven P. Gygi
contact affiliation	Department of Cell Biology Harvard Medical School Boston, MA
contact email	sgygi@hms.harvard.edu
lab head
Joao Paulo
contact affiliation	Harvard Medical School
contact email	joao_paulo@post.harvard.edu
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/2024/10/PXD054559

PRIDE project URI

• PRIDE
  1. PXD054559
     1. Label: PRIDE project
     2. Name: Achieving a 35plex Tandem Mass Tag Reagent Set Through Deuterium Incorporation