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Accession: PRJNA435588 ID: 435588

Chromatin mapping and single-cell immune profiling defines the temporal dynamics of ibrutinib drug response in chronic lymphocytic leukemia

Chronic lymphocytic leukemia (CLL) is a genetically, epigenetically, and clinically heterogeneous disease. Despite this heterogeneity, the Bruton tyrosine kinase (BTK) inhibitor ibrutinib provides effective treatment for the vast majority of CLL patients. To define the underlining regulatory program, we analyzed high-resolution time courses of ibrutinib treatment in closely monitored patients, combining cellular phenotyping (flow cytometry), single-cell transcriptome profiling (scRNA-seq), and chromatin mapping (ATAC-seq). We identified a consistent regulatory program shared across all patients, which was further validated by an independent CLL cohort. In CLL cells, this program starts with a sharp decrease of NF-κB binding, followed by reduced regulatory activity of lineage-defining transcription factors (including PAX5 and IRF4) and erosion of CLL cell identity, finally leading to the acquisition of a quiescence-like gene signature which was shared across several immune cell types. More...
AccessionPRJNA435588; GEO: GSE111015
TypeUmbrella project
SubmissionRegistration date: 22-Feb-2018
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
RelevanceSuperseries
Project Data:
Resource NameNumber
of Links
Sequence data
SRA Experiments188
Other datasets
BioSample188
GEO DataSets3
GEO Data Details
ParameterValue
Data volume, Supplementary Mbytes20135
SRA Data Details
ParameterValue
Data volume, Gbases438
Data volume, Tbytes0.18
Chromatin mapping and single-cell immune profiling defines the temporal dynamics of ibrutinib drug response in chronic lymphocytic leukemia encompasses the following 2 sub-projects:
Project TypeNumber of Projects
Epigenomics1
BioProject
accession
OrganismTitle
PRJNA435593Homo sapiensChromatin mapping and single-cell immune profiling defines the temporal dynamics of ibrutinib drug response in chronic lymphocytic leukemia [ATAC-seq] (CeMM Research Center for...)
Transcriptome or Gene expression1
BioProject
accession
OrganismTitle
PRJNA435591Homo sapiensChromatin mapping and single-cell immune profiling defines the temporal dynamics of ibrutinib drug response in chronic lymphocytic leukemia [scRNA-seq] (CeMM Research Center for...)

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