PXD005940-2

PXD005940 is an original dataset announced via ProteomeXchange.

Title	Global Proteome Analysis of the NCI-60 Cell Line Panel
Description	The NCI-60 cell line collection is a very widely used panel for the study of cellular mechanisms of cancer in general and in vitro drug action in particular. It is a model system for the tissue types and genetic diversity of human cancers and has been extensively molecularly characterized. Here, we present a quantitative proteome and kinome profile of the NCI-60 panel covering, in total, 10,350 proteins (including 375 protein kinases) and including a core cancer proteome of 5,578 proteins that were consistently quantified across all tissue types. Bioinformatic analysis revealed strong cell line clusters according to tissue type and disclosed hundreds of differentially regulated proteins representing potential biomarkers for numerous tumor properties. Integration with public transcriptome data showed considerable similarity between mRNA and protein expression. Modeling of proteome and drug-response profiles for 108 FDA-approved drugs identified known and potential protein markers for drug sensitivity and resistance. To enable community access to this unique resource, we incorporated it into a public database for comparative and integrative analysis (http://wzw.tum.de/proteomics/nci60).
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:36:21.224.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Martin Frejno
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2017-02-21 01:10:14	ID requested
1	2017-03-30 23:52:31	announced
⏵ 2	2024-10-22 04:36:27	announced	2024-10-22: Updated project metadata.

10.1016/j.celrep.2013.07.018;

Gholami AM, Hahne H, Wu Z, Auer FJ, Meng C, Wilhelm M, Kuster B, Global proteome analysis of the NCI-60 cell line panel. Cell Rep, 4(3):609-20(2013) [pubmed]

ProteomeXchange project tag: deep learning, benchmarking, machine learning

curator keyword: Biomedical

submitter keyword: LC-MS/MS, NCI60, DTP

Bernhard Kuster
contact affiliation	Chair of Proteomics and Bioanalytics Technical University of Munich Emil-Erlenmeyer-Forum 5 85354 Freising Germany
contact email	kuster@tum.de
lab head
Martin Frejno
contact affiliation	TUM
contact email	martin.frejno@tum.de
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/2017/03/PXD005940

PRIDE project URI

• PRIDE
  1. PXD005940
     1. Label: PRIDE project
     2. Name: Global Proteome Analysis of the NCI-60 Cell Line Panel