PXD022198

PXD022198 is an original dataset announced via ProteomeXchange.

Title	The Proteome Landscape of Chronic Lymphocytic Leukemia (CLL)
Description	Many functional consequences of mutations on tumor phenotypes in chronic lymphocytic leukemia (CLL) are only partially known. This is in part due to a scarcity of information on the proteome of CLL. We profiled the proteome of 117 CLL samples with data-independent acquisition mass spectrometry (DIA-MS) and integrated the results with genomic, transcriptomic, functional data and clinical outcome. We found trisomy 12 and IGHV to be major determinants of proteome variation in CLL (1055 and 542 differential proteins FDR of 5%). Trisomy 12 was associated with limited protein abundance buffering. Protein complex analyses detected functional units involved in BCR/PI3K/AKT signaling in CLL with trisomy 12. We associated protein expression with response to anticancer drugs, and STAT2 protein expression emerged as a biomarker for the prediction of response to kinase inhibitors including BTK and MEK inhibitors. STAT2 protein levels were determined by gene dosage (trisomy 12), stabilization in a protein complex and linked to interferon signaling in CLL. This study highlights the emerging importance of protein abundance profiling in CLL biology.
HostingRepository	PRIDE
AnnounceDate	2021-09-24
AnnouncementXML	Submission_2021-09-26_22:36:52.490.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fabienne Meier-Abt
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-27 02:25:51	ID requested
1	2021-09-24 06:28:25	announced
⏵ 2	2021-09-26 22:36:53	announced	2021-09-27: Updated publication reference for PubMed record(s): 34189564.

Meier-Abt F, Lu J, Cannizzaro E, Pohly MF, Kummer S, Pfammatter S, Kunz L, Collins BC, Nadeu F, Lee KS, Xue P, Gwerder M, Roiss M, H, ü, llein J, Scheinost S, Dietrich S, Campo E, Huber W, Aebersold R, Zenz T, The protein landscape of chronic lymphocytic leukemia. Blood, 138(24):2514-2525(2021) [pubmed]

submitter keyword: Chronic lymphocytic leukemia, DIA-MS, LUMOS, human

Thorsten Zenz
contact affiliation	Medical Oncology and Hematology, University Hospital and University of Zurich, Zurich, Switzerland
contact email	thorsten.zenz@usz.ch
lab head
Fabienne Meier-Abt
contact affiliation	University Hospital Zurich ETHZ
contact email	fabienne.meier-abt@usz.ch
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/2021/09/PXD022198

PRIDE project URI

• PRIDE
  1. PXD022198
     1. Label: PRIDE project
     2. Name: The Proteome Landscape of Chronic Lymphocytic Leukemia (CLL)