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Related Concept Videos

Epigenetic Regulation01:46

Epigenetic Regulation

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Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
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Related Experiment Video

Updated: Jul 15, 2025

Repressing Gene Transcription by Redirecting Cellular Machinery with Chemical Epigenetic Modifiers
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Repressing Gene Transcription by Redirecting Cellular Machinery with Chemical Epigenetic Modifiers

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Predicting gene expression changes upon epigenomic drug treatment.

Piyush Agrawal1, Vishaka Gopalan1, Sridhar Hannenhalli1

  • 1Cancer Data Science Lab, National Cancer Institute, NIH, Bethesda, MD, USA.

Biorxiv : the Preprint Server for Biology
|October 2, 2023
PubMed
Summary

Predicting gene expression changes after epigenetic drug treatment is challenging due to variable genomic responses. This study developed a machine learning model to accurately forecast these changes, showing promise for personalized cancer therapy.

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Area of Science:

  • Cancer epigenetics
  • Genomic drug response prediction
  • Machine learning in oncology

Background:

  • Epigenetic alterations like DNA methylation and histone modifications drive tumor progression.
  • Epigenetic drugs, including histone deacetylase inhibitors (HDACi) and DNA methyltransferase inhibitors (DNMTi), are used in cancer therapy.
  • A key challenge is the lack of genomic specificity, leading to unpredictable transcriptional changes and variable drug responses.

Conclusions:

  • This study provides the first assessment of predicting genome-wide transcriptomic changes after HDACi treatment.
  • The lack of comprehensive omics data from clinical trials currently limits the clinical applicability of this predictive approach.
  • Further data collection is needed to translate these findings into clinical settings for epigenetic cancer therapies.