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Updated: May 31, 2026

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
Published on: April 5, 2018
Cancer cells' epigenetic composition and predisposition to histone deacetylase inhibitor sensitization
Narasimharao Nalabothula1, France Carrier
1Marlene & Stewart Greenebaum Cancer Center, Department of Radiation Oncology, University of Maryland School of Medicine, Baltimore, MD 21201, USA.
Abstract:
Normal cells are up to ten times more resistant to histone deacetylase inhibitors (HDACis)-induced cell death compared with transformed cells. The molecular processes underlying this selectivity for cancer cells are still not well understood. Although a differential response to oxidative stress and capacity to repair damaged DNA have been described in some systems, these cannot fully account for the sensitivity of cancer cells to HDACis since the heterogeneity of cancer cells prompts differential sensitivities to reactive oxygen species and generates a panoply of defective DNA repair mechanisms within given histologies, cancer cell lines and tumor xenografts. It seems also unlikely that the influence of HDACis on cancer treatments reside primarily on gene transcription, since gene-expression profiling aimed at defining correlation with response to HDACis in cancer cells indicates that less than 5% to approximately 20% of transcribed genes are altered by HDACis treatment. Moreover, the altered genes vary from cell line to cell line and between different HDACis. Therefore, no consistent picture of a target(s) or pathway(s) modulated by HDACis has emerged. One consistent parameter that has however been observed in peripheral blood mononuclear cells of patients treated with HDACi is the accumulation of acetylated histones. Because one of the primary functions of histone acetylation is to increase chromatin accessibility, this article will explore the possibility that intrinsic molecular and structural characteristics of cancer cells provide a selective advantage for HDACis sensitivity.
Insights
Cancer cells are more sensitive to histone deacetylase inhibitors (HDACis) than normal cells. This study explores how cancer cells' intrinsic molecular and structural traits may enhance their sensitivity to HDACis.
Area of Science:
- Oncology
- Molecular Biology
- Epigenetics
Background:
- Normal cells exhibit higher resistance to histone deacetylase inhibitors (HDACis)-induced cell death compared to cancer cells.
- The precise molecular mechanisms driving this selectivity remain largely unknown.
- Existing explanations involving differential oxidative stress responses and DNA repair capacities are insufficient due to cancer cell heterogeneity.
Purpose of the Study:
- To investigate the potential role of intrinsic molecular and structural characteristics of cancer cells in their heightened sensitivity to HDACis.
- To explore alternative mechanisms beyond gene transcription modulation for HDACis' selective action.
Main Methods:
- Review of existing literature on HDACis' effects on cancer cells.
- Analysis of gene-expression profiling data correlating HDACis response with transcriptional changes.
- Examination of histone acetylation patterns in patients treated with HDACis.
Main Results:
- Gene transcription alterations by HDACis are inconsistent across cell lines and drugs, affecting less than 20% of genes.
- Accumulation of acetylated histones is a consistent finding in patients treated with HDACis.
- Histone acetylation is known to increase chromatin accessibility.
Conclusions:
- The primary mechanism of HDACis' selective action on cancer cells is unlikely to be solely gene transcription modulation.
- Intrinsic molecular and structural properties of cancer cells, potentially related to chromatin accessibility via histone acetylation, may confer selective sensitivity to HDACis.
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