PXD059628

PXD059628 is an original dataset announced via ProteomeXchange.

Title	Proteome-wide multipoint internal calibration curves for mass spectrometry-based quantitative proteomics
Description	Mass spectrometry (MS)-based proteomics is known for its high accuracy in quantifying peptides and proteins using various calibration strategies, including internal and external calibration curves. While external multi-point calibration curves are created from serial dilutions, they often fail to account for sample-specific matrix effects. In contrast, internal calibration curves account for sample matrix but face scalability and cost challenges for whole proteome analyses. In this manuscript we present a novel TMT-based multipoint internal calibration curve strategy, referred to as TMTCal, which enables the generation of internal calibration curves for all peptides identified within a proteome within a single experiment. We applied this strategy to human ovarian cancer cells to evaluate the linear quantitative responses of all the identified peptides and reveal the significant proteome changes associated with cisplatin treatment.
HostingRepository	PRIDE
AnnounceDate	2025-02-24
AnnouncementXML	Submission_2025-02-24_06:01:55.173.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Cristina Chiva
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex reporter fragment
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-10 04:03:57	ID requested
⏵ 1	2025-02-24 06:01:55	announced

Dataset with its publication pending

submitter keyword: quantitative, ovarian cancer, multipoint,TMT, calibration curves

Eduard Sabidó
contact affiliation	1. Centre for Genomic Regulation, Dr Aiguader 88, 08003 Barcelona, Spain 2. Universitat Pompeu Fabra, Dr Aiguader 88, 08003 Barcelona, Spain
contact email	eduard.sabido@crg.es
lab head
Cristina Chiva
contact affiliation	University Pompeu Fabra
contact email	cristina.chiva@upf.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/2025/02/PXD059628

PRIDE project URI

• PRIDE
  1. PXD059628
     1. Label: PRIDE project
     2. Name: Proteome-wide multipoint internal calibration curves for mass spectrometry-based quantitative proteomics