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Updated: Aug 24, 2025

Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines
Published on: June 2, 2018
Targeting phase separation on enhancers induced by transcription factor complex formations as a new strategy for
Ken-Ichi Takayama1, Satoshi Inoue1,2
1Department of Systems Aging Science and Medicine, Tokyo Metropolitan Institute of Gerontology, Tokyo, Japan.
Abstract:
The limited options for treating patients with drug-resistant cancers have emphasized the need to identify alternative treatment targets. Tumor cells have large super-enhancers (SEs) in the vicinity of important oncogenes for activation. The physical process of liquid-liquid phase separation (LLPS) contributes to the assembly of several membrane-less organelles in mammalian cells. Intrinsically disordered regions (IDRs) of proteins induce LLPS formation by developing condensates. It was discovered that key transcription factors (TFs) undergo LLPS in SEs. In addition, TFs play critical roles in the epigenetic and genetic regulation of cancer progression. Recently, we revealed the essential role of disease-specific TF collaboration changes in advanced prostate cancer (PC). OCT4 confers epigenetic changes by promoting complex formation with TFs, such as Forkhead box protein A1 (FOXA1), androgen receptor (AR) and Nuclear respiratory factor 1 (NRF1), inducing PC progression. It was demonstrated that TF collaboration through LLPS underlying transcriptional activation contributes to cancer aggressiveness and drug resistance. Moreover, the disruption of TF-mediated LLPS inhibited treatment-resistant PC tumor growth. Therefore, we propose that repression of TF collaborations involved in the LLPS of SEs could be a promising strategy for advanced cancer therapy. In this article, we summarize recent evidence highlighting the formation of LLPS on enhancers as a potent therapeutic target in advanced cancers.
Insights
Targeting transcription factor (TF) liquid-liquid phase separation (LLPS) in super-enhancers (SEs) offers a novel strategy for drug-resistant cancers. Disrupting TF-mediated LLPS inhibits tumor growth, paving the way for new cancer therapies.
Area of Science:
- Oncology
- Molecular Biology
- Epigenetics
Background:
- Drug-resistant cancers necessitate novel therapeutic targets.
- Super-enhancers (SEs) activate oncogenes, and their function is linked to liquid-liquid phase separation (LLPS).
- Transcription factors (TFs) within SEs play crucial roles in cancer progression and drug resistance.
Purpose of the Study:
- To explore the therapeutic potential of targeting TF-mediated LLPS in SEs for advanced cancers.
- To highlight the role of TF collaboration in LLPS and its contribution to cancer aggressiveness.
- To summarize evidence supporting LLPS on enhancers as a therapeutic target.
Main Methods:
- Review of recent evidence on LLPS in cancer.
- Analysis of TF collaboration in SEs, focusing on prostate cancer (PC) models.
- Investigation of OCT4, FOXA1, AR, and NRF1 interactions in PC progression.
Main Results:
- TF collaboration via LLPS in SEs drives transcriptional activation, contributing to cancer aggressiveness and drug resistance.
- Disruption of TF-mediated LLPS was shown to inhibit the growth of treatment-resistant PC tumors.
- Specific TF collaborations, including OCT4 with FOXA1, AR, and NRF1, promote epigenetic changes and PC progression.
Conclusions:
- Repressing TF collaborations in SE LLPS presents a promising therapeutic strategy for advanced cancers.
- Targeting LLPS on enhancers offers a new avenue for combating drug-resistant malignancies.
- Understanding TF-LLPS dynamics is key to developing effective cancer treatments.
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