PXD022216-1

PXD022216 is an original dataset announced via ProteomeXchange.

Title	The Proteome Landscape of Chronic Lymphocytic Leukemia
Description	Many functional consequences of mutations on tumor phenotypes in chronic lymphocytic leukemia (CLL) are only partially known. This is in part due to missing information on the proteome of CLL. We profiled the proteome of 49 diverse CLL samples with data-independent acquisition mass spectrometry (DIA-MS) and related the results to genomic, functional and clinical differences. We found trisomy 12 and IGHV to be major determinants of proteome variation in CLL (1073 and 512 differential proteins). In contrast to reports in other biological systems, the disease driver trisomy 12 was associated with limited protein buffering, a finding that suggests the biological relevance of proteins encoded by chromosome 12 for CLL biology. Protein complex analyses detected functional units involved in BCR/PI3K/AKT signaling in CLL with trisomy 12. We identified the transcription factor complex of STAT1/STAT2 to be up-regulated in IGHV unmutated CLL. We tested the functional relevance of protein expression for associations 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. This study highlights the emerging importance of protein abundance profiling in cancer research and identifies STAT2 protein levels as new key factor in CLL biology.
HostingRepository	PRIDE
AnnounceDate	2021-09-27
AnnouncementXML	Submission_2021-09-27_03:34:11.935.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ben Collins
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-28 03:11:43	ID requested
⏵ 1	2021-09-27 03:34:12	announced
2	2024-10-22 05:29:39	announced	2024-10-22: Updated project metadata.

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: leukemia, CLL, diaPASEF

Ben Collins
contact affiliation	Queen's University Belfast, UK
contact email	ben.collins@qub.ac.uk
lab head
Ben Collins
contact affiliation	Queen's University Belfast
contact email	ben.collins@qub.ac.uk
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/PXD022216

PRIDE project URI

• PRIDE
  1. PXD022216
     1. Label: PRIDE project
     2. Name: The Proteome Landscape of Chronic Lymphocytic Leukemia