Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Differential gene expression in leukemia is driven by enhancer heterogeneity [CUT&TAG]

ABSTRACT: Differential gene expression in leukemia is driven by enhancer heterogeneity [CUT&TAG]

PROVIDER: PRJNA1266701 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Differential gene expression in leukemia is driven by enhancer heterogeneity [CUT&TAG]

Project description:Genetic alterations alone cannot account for the diverse phenotypes of cancer cells. Even cancers with the same driver mutation show significant transcriptional heterogeneity and varied responses to therapy. However, the mechanisms underpinning this heterogeneity remain under-explored. Here, we find that novel enhancer usage is a common feature in acute lymphoblastic leukemia (ALL). In particular, KMT2A::AFF1 ALL, an aggressive leukemia subtype with a poor prognosis and a low mutational burden, exhibits substantial transcriptional heterogeneity between individuals. Using single cell multiome analysis and extensive chromatin profiling, we reveal that much transcriptional heterogeneity in KMT2A::AFF1 ALL is driven by novel enhancer usage. Using high resolution Micro Capture-C in primary patient samples, we also identify patient-specific enhancer activity at key oncogenes such as MEIS1 and RUNX2, driving high levels of expression of both oncogenes in a patient-specific manner. Overall, our data show that enhancer heterogeneity is highly prevalent in KMT2A::AFF1 ALL and may also represent a mechanism for driving transcriptional heterogeneity in cancer more generally.

2025-08-15 | GSE297907 | GEO

KMT2C and KMT2D amplify GRHL2-driven enhancer activation [CUT&Tag]

Project description:KMT2C and KMT2D amplify GRHL2-driven enhancer activation [CUT&Tag]

| PRJNA1441644 | ENA

Enhancer-associated LncRNA-ITGA2 promotes vascular smooth muscle remodeling by mediating ITGA2 promoter-enhancer interactions [CUT&TAG]

Project description:The proliferation and migration of VSMCs significantly contribute to vascular remodeling. Recent studies have suggested that enhancer-associated long noncoding RNAs (elncRNAs) play crucial roles in regulating gene expression and cell fate. However, the specific elncRNAs implicated in VSMC dysfunction and their regulatory mechanisms remain poorly understood. This study used multiomics profiling, including CUT&Tag, promoter capture Hi-C (PCHi-C), and microarray analysis, to identify LncRNA-ITGA2 as a novel elncRNA highly expressed in PDGF-induced proliferative human VSMCs. We used CUT&Tag technology to identify enhancer regions labeled by H3K4me1, and overlap lncRNA gene loci in LNCipedia database to identify enhancer-associated long noncoding RNAs (elncRNAs). By integrating the CUT&Tag data of H3K4me1 and H3K27ac, the dynamic regulatory network of enhancers was systematically analyzed, providing a key epigenetic basis for subsequent functional studies and target discovery.

2025-12-31 | GSE290462 | GEO

Analysis of chromatin occupancy in erythroid cells by CUT&Tag following CRISPR editing of BCL11A enhancer

Project description:The mechanisms underlying the remarkable efficacy of CRISPR-mediated enhancer ablation remain poorly understood. Here, we employ CUT&Tag to investigate histone modifications following BCL11A enhancer editing or CTCF disruption.

2025-11-13 | GSE292695 | GEO

Automated CUT&Tag profiling of chromatin heterogeneity in mixed-lineage leukemia

Project description:Acute myeloid and lymphoid leukemias often harbor chromosomal translocations involving the Mixed Lineage Leukemia-1 gene, which encodes the KMT2A lysine methyltransferase. The most common translocations produce in-frame fusions of KMT2A to trans-activation domains of chromatin regulatory proteins. Here we develop a strategy to map the genome-wide occupancy of oncogenic KMT2A fusion proteins in primary patient samples regardless of fusion partner. By modifying the versatile CUT&Tag method for full automation we identify common and tumor-specific patterns of aberrant chromatin regulation induced by different KMT2A fusion proteins. Integration of automated and single-cell CUT&Tag uncovers lineage heterogeneity within patient samples and provides an attractive avenue for future diagnostics.

2021-06-10 | GSE159608 | GEO

The Mediator complex regulates enhancer-promoter interactions [Cut&Tag]

Project description:The Mediator complex regulates enhancer-promoter interactions [Cut&Tag]

| PRJNA848214 | ENA

CUT&TAG of OE19 cell line

Project description:To map the chromatin binding sites for SMC1 in OE19 cells, we performed CUT&TAG.

2024-09-25 | E-MTAB-14090 | biostudies-arrayexpress