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Epigenetic Regulation

Epigenetic Regulation

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

Epigenetic Regulation

Epigenetic Regulation

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

RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...

Epigenetic Regulation

Epigenetic Regulation

Epigenetic changes alter the physical structure of the DNA without changing the genetic sequence and often regulate whether genes are turned on or off. This regulation ensures that each cell produces only proteins necessary for its function. For example, proteins that promote bone growth are not produced in muscle cells. Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
X-chromosome...

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Related Experiment Video

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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

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Quantitative ChIP-Seq normalization reveals global modulation of the epigenome.

David A Orlando¹, Mei Wei Chen¹, Victoria E Brown¹

¹Syros Pharmaceuticals, 480 Arsenal Street, Watertown, MA 02472, USA.

|December 2, 2014

Summary

We developed ChIP-Rx, a new method for epigenomic profiling that uses a reference genome to enable precise, quantitative comparisons of histone modification status across cell populations, revealing hidden dynamic changes relevant to human disease.

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Published on: March 7, 2018

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A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

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Published on: August 13, 2020

Area of Science:

Molecular Biology
Genomics
Epigenetics

Background:

Chromatin immunoprecipitation coupled with massively parallel DNA sequencing (ChIP-seq) is crucial for studying chromatin regulation in human diseases.
Current ChIP-seq methods lack empirical normalization, limiting precision and utility for quantitative comparisons.
This limitation hinders the discovery of subtle, dynamic epigenomic changes.

Purpose of the Study:

To introduce ChIP with reference exogenous genome (ChIP-Rx) as a novel epigenomic profiling technique.
To enable genome-wide quantitative comparisons of histone modification status across diverse cell populations.
To overcome limitations of traditional normalization methods in ChIP-seq experiments.

Main Methods:

ChIP-Rx utilizes a defined quantity of a reference epigenome for normalization.
This method allows for quantitative comparisons of histone modification levels.
The technique enables genome-wide profiling of epigenomic changes.

Main Results:

ChIP-Rx facilitates the discovery and quantification of dynamic epigenomic profiles in mammalian cells.
The method reveals changes in histone modification occupancy that are missed by traditional normalization.
Demonstrated utility in measuring epigenomic alterations after chemical perturbations.

Conclusions:

ChIP-Rx provides a robust, quantitative approach for epigenomic profiling.
Reference normalization with ChIP-Rx enhances the precision of ChIP-seq experiments.
This technique aids in discovering disease-relevant epigenomic alterations.