PXD027742

PXD027742 is an original dataset announced via ProteomeXchange.

Title	A deeper look at carrier proteome effects for single-cell proteomics
Description	We probe the carrier proteome effects in single cell proteomics with mixed species TMTpro-labeled samples. We demonstrate that carrier proteomes, while increasing overall identifications, dictate which proteins are identified. We show that quantitative precision and signal intensity are limited at high carrier levels, hindering the recognition of regulated proteins. Guidelines for optimized mass spectrometry acquisition parameters and best practices for fold-change or protein copy number-based comparisons are provided.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:53:08.697.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zilu Ye
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2021-08-05 09:00:05	ID requested
1	2022-02-24 03:42:25	announced
2	2023-05-14 14:20:49	announced	2023-05-14: Updated project metadata.
⏵ 3	2023-11-14 08:53:09	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: EPIC-XS

submitter keyword: TMT,Proteomics, single cell

Jesper V. Olsen
contact affiliation	University of Copenhagen Faculty of Health and Medical Sciences Novo Nordisk Foundation Center for Protein Research Proteomics Program
contact email	jesper.olsen@cpr.ku.dk
lab head
Zilu Ye
contact affiliation	University of Copenhagen
contact email	yezlandss@gmail.com
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/2022/02/PXD027742

PRIDE project URI

• PRIDE
  1. PXD027742
     1. Label: PRIDE project
     2. Name: A deeper look at carrier proteome effects for single-cell proteomics