PXD005354-2

PXD005354 is an original dataset announced via ProteomeXchange.

Title	Pharmacoproteomic characterisation of human colon and rectal cancer - CRC65 Full Proteomes
Description	Most molecular cancer therapies act on protein targets but data on the proteome status of patients and cellular models are only beginning to emerge. Here, we profiled the proteomes of 65 colorectal cancer (CRC) cell lines to a depth of >10,000 proteins using mass spectrometry. Integration with proteomes of 90 CRC patients, as well as transcriptomes of 145 cell lines and 89 patients defined integrated CRC subtypes, highlighting cell lines representative of each tumour subtype. Modelling the responses of 52 CRC cell lines to 577 drugs as a function of proteome profiles enabled predicting drug sensitivity for cell lines and patients. Among many novel associations, MERTK was identified as a predictive marker for resistance towards MEK1/2 inhibitors and immunohistochemistry of 1,000 CRC tumours confirmed MERTK as a prognostic survival marker. We provide the proteomic and pharmacological data to the community to e.g. facilitate the design of innovative prospective clinical trials.
HostingRepository	PRIDE
AnnounceDate	2017-10-27
AnnouncementXML	Submission_2017-11-07_04:07:37.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	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2016-11-15 04:50:43	ID requested
1	2017-10-27 03:01:46	announced
⏵ 2	2017-11-07 04:07:39	announced	Updated publication reference for PubMed record(s): 29101300.
3	2017-12-13 06:14:24	announced	Updated project metadata.
4	2024-10-22 04:34:27	announced	2024-10-22: Updated project metadata.

Frejno M, Zenezini Chiozzi R, Wilhelm M, Koch H, Zheng R, Klaeger S, Ruprecht B, Meng C, Kramer K, Jarzab A, Heinzlmeir S, Johnstone E, Domingo E, Kerr D, Jesinghaus M, Slotta-Huspenina J, Weichert W, Knapp S, Feller SM, Kuster B, Pharmacoproteomic characterisation of human colon and rectal cancer. Mol Syst Biol, 13(11):951(2017) [pubmed]

curator keyword: Biomedical

submitter keyword: CRC65, CPTAC, QUASAR2, mass spectrometry, patient stratification, personalised medicine, integrated Full Proteome Subtypes, Consensus Molecular Subtypes, correlation of mRNA and protein abundance, Kinobeads

Bernhard Kuster
contact affiliation	Chair of Proteomics and Bioanalytics, Technische Universität München, 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/2017/10/PXD005354

PRIDE project URI

• PRIDE
  1. PXD005354
     1. Label: PRIDE project
     2. Name: Pharmacoproteomic characterisation of human colon and rectal cancer - CRC65 Full Proteomes