PXD023662

PXD023662 is an original dataset announced via ProteomeXchange.

Title	Proteomics analysis of childhood acute lymphoblastic leukemia cell lines reveals novel drug vulnerabilities
Description	Acute lymphoblastic leukemia (ALL) is the most common childhood cancer, and it has a 5-year survival rate of 85% for European children. But for subsets of patients who fail to respond to standard of care chemotherapeutics, treatment options are limited, and clinical prognosis is poor. To establish a platform and methodology to better characterize ALL subtypes and identify their pharmacologic vulnerabilities, we assembled a biobank of 49 readily available childhood ALL cell lines representing diverse immunotypes and genetic profiles. Using these cell lines, we performed comprehensive multi-omic analyses, providing proteomic, transcriptomic and pharmacoproteomic characterization of childhood ALL. We used this resource to characterize the functional impact of genetic fusions and cellular differentiation states on the proteome. Additionally, we identified a novel drug vulnerability in one of the ALL subtypes. Our results are provided as an interactive online data portal with navigable proteomics, transcriptomics, and drug sensitivity profiles.
HostingRepository	PRIDE
AnnounceDate	2022-03-26
AnnouncementXML	Submission_2022-04-06_06:59:48.105.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Rozbeh Jafari
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-18 23:38:34	ID requested
1	2022-03-26 05:18:41	announced
⏵ 2	2022-04-06 06:59:50	announced	2022-04-06: Updated publication reference for PubMed record(s): 35354797.

Leo IR, Aswad L, Stahl M, Kunold E, Post F, Erkers T, Struyf N, Mermelekas G, Joshi RN, Gracia-Villacampa E, Ö, stling P, Kallioniemi OP, Tamm KP, Siavelis I, Lehti, ö J, Vesterlund M, Jafari R, Integrative multi-omics and drug response profiling of childhood acute lymphoblastic leukemia cell lines. Nat Commun, 13(1):1691(2022) [pubmed]

submitter keyword: LC-MSMS, ALL, HiRIEF

Rozbeh Jafari
contact affiliation	Karoliniska Institutet, Department of Oncology-Pathology
contact email	rozbeh.jafari@ki.se
lab head
Rozbeh Jafari
contact affiliation	Karolinska Institutet
contact email	rozbeh.jafari@ki.se
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/2022/03/PXD023662

PRIDE project URI

• PRIDE
  1. PXD023662
     1. Label: PRIDE project
     2. Name: Proteomics analysis of childhood acute lymphoblastic leukemia cell lines reveals novel drug vulnerabilities