⮝ Full datasets listing

PXD013102

PXD013102 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSystematic characterization of BAF mutations explains intra-complex synthetic lethalities
DescriptionAberrations in genes coding for subunits of the BAF chromatin remodeling complex are highly abundant in human cancers. Currently, it is not understood how these loss-of-function mutations contribute to cancer development and how they can be targeted therapeutically. The cancer type specific occurrence patterns of certain subunit mutations suggest subunit-specific effects on BAF complex function, possibly by the formation of aberrant residual complexes. Here, we systematically characterize the effects of individual subunit loss on complex composition, chromatin accessibility and gene expression in a panel of knock-out cell lines deficient for 22 targetable BAF subunits. We observe strong, specific and often discordant alterations dependent on the targeted subunit and show that these explain intra-complex co-dependencies, including the novel synthetic lethal interactions SMARCA4-ARID2, SMARCA4-ACTB and SMARCC1-SMARCC2. These data provide insights into the role of different BAF subcomplexes in genome-wide chromatin organization and suggest novel approaches to therapeutically target BAF mutant cancers.
HostingRepositoryPRIDE
AnnounceDate2019-08-01
AnnouncementXMLSubmission_2019-08-01_04:09:02.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD013102
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterPeter Májek
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListPhospho; Methyl; TMT6plex; Oxidation; Acetyl; Carbamidomethyl
InstrumentOrbitrap Fusion Lumos; LTQ Orbitrap Velos; Q Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-03-15 04:41:29ID requested
12019-08-01 04:09:03announced
Publication List
Dataset with its publication pending
Keyword List
curator keyword: Biomedical
submitter keyword: BAF complex, mammalian SWI/SNF complex, chromatin remodeling, interaction proteomics, ATAC-seq, transcriptomics, synthetic lethality, chromatin accessibility, chromatin binding
Contact List
Stefan Kubicek
contact affiliationCeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences Christian Doppler Laboratory for Chemical Epigenetics and Anti-Infectives Lazarettgasse 14, AKH BT 25.3 1090 Vienna, Austria
contact emailSKubicek@cemm.oeaw.ac.at
lab head
Peter Májek
contact affiliationCeMM, Reserach Center for Molecular Medicine
contact emailpmajek@cemm.at
dataset submitter
Full Dataset Link List
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/2019/08/PXD013102
PRIDE project URI
Repository Record List
[ + ]