Characterizing epigenetic changes in cancer

Methods for cancer epigenetics studies provide insight into tumorigenic pathways and cancer progression

Cancer Epigenetics

Studies of epigenetic alterations in cancer, such as aberrant methylation and altered transcription factor binding, can provide insight into important tumorigenic pathways. As altered methylation often activates or silences genes, changes in the epigenome can affect gene expression and the rate of cancer progression.

Next-generation sequencing (NGS) and microarray technologies can detect altered methylation patterns and other epigenetic changes in cancer. Illumina works with cancer epigenetics experts to ensure its NGS and array solutions meet the field's rapidly evolving needs.

cancer epigenetics illustration

Aberrant methylation is a common epigenetic alteration in cancer. NGS allows researchers to identify and compare methylation across the genome in cancer vs. normal cells, and gain insight into methylation patterns at a single nucleotide level.

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Tracking Tumor Evolution

Dr. Christopher Mason describes how tumor evolution can be tracked by sequencing the transcriptome, epigenome, and epitranscriptome.

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Methylation microarrays enable epigenome-wide association studies that can analyze multiple cancer samples in parallel. Arrays quantitatively interrogate methylation sites across the genome, providing researchers with insight into the regulation of cancer-related genes and pathways.

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Methylation and Metastasis

Researchers investigate the epigenetics behind cancer development and metastasis using methylation microarrays and NGS.

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Scientists Discuss Cancer Epigenetics Research

Glioma Sample
NGS and Methylation Arrays for Brain Tumor Studies

Se Hoon Kim, MD, PhD explains how combining NGS panels with methylation microarrays can deliver value in tumor characterization for clinical research.

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Chromatin Landscape
Surveying the Chromatin Landscape

An NGS method that maps open chromatin regions helps researchers gain a better understanding of the epigenome and its impact on cancer and autoimmune diseases.

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Tobacco leaves
The Genetic Basis of Oral Cancer

Researchers identify genomic alterations associated with a deadly oral cancer, including somatic and germline variants as well as changes in promoter methylation and transcription.

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Altered transcription factor binding is another common epigenetic change linked to cancer. Chromatin immunoprecipitation sequencing (ChIP-Seq) can provide a genome-wide snapshot of DNA-associated protein activity in cancer vs. normal cells.

The method offers hypothesis-free insights into the regulation of gene expression. Deep sequencing enables detection of lower-abundance protein-DNA interactions often observed with transcription factors.

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Sequencing the Cancer Epigenome

In episode 49 of the Illumina Genomics Podcast, Dr. Susan Clark discusses the role of epigenetics in cancer and human biology.

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DNA Methylation Profiling and Meningioma Recurrence Risk

Dr. Gelareh Zadeh and Dr. Farshad Nassiri highlight transformative research using DNA methylation technology and methylome-based predictors to understand meningioma recurrence risk.

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DNA Methylation Classifiers for Brain Tumors and Sarcomas
Cancer Cell and DNA

Dr. Matija Snuderl discusses his team's research into the use of machine learning and epigenetic signatures to improve the accuracy of solid tumor classifications, especially for brain tumors and sarcomas.

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Cancer Epigenomics and a Cacophony of Gene Expression

In episode 21 of the Illumina Genomics Podcast, we discuss the epigenetics and epigenomics of cancer with Dr. Peter Scacheri, Professor of Genetics and Genome Sciences at Case Western Reserve University in Cleveland, Ohio.

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Cacophony of Gene Expression

The assay for transposase-accessible chromatin with sequencing (ATAC-Seq) involves sequencing regions of open chromatin across the genome. This information can provide insights into how chromatin packaging affects cancer gene expression.This method does not require prior knowledge of regulatory elements, making it a powerful epigenetic discovery tool.

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Learn more about ATAC-Seq
Infinium MethylationEPIC BeadChip Kit
  • Microarray featuring expert-selected content
  • Coverage of > 850,000 methylation sites per sample at single-nucleotide resolution
  • FFPE compatibility
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iScan Array Scanner
  • High sample throughput
  • Flexibility for multiple applications
  • High data quality
  • Automation compatibility
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TruSeq Methyl Capture EPIC Library Prep Kit
  • Targeted methylation sequencing
  • Targets over 3.3 million CpGs. Interrogates biologically important methylome targets.
  • 500 ng human genomic DNA input
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Methylation Arrays in Brain Tumor Research

Professor Andreas von Deimling from the University of Heidelberg presents results using methylation arrays and NGS in neuro-oncology research. He shares his vision on how these analyses could be applied to develop brain tumor diagnostics in the future.

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Pipetting into Eppendorf tubes
Study Reveals Decreased Average Methylation Levels Years Before Breast Cancer Diagnosis

A study of pre-diagnostic blood samples identifies epigenome-wide hypomethylation changes that may predict breast cancer risk.

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The Epigenetic Landscape of T Cell Exhaustion

This study identifies epigenetic patterns associated with T-cell exhaustion, and suggests potential future approaches for overcoming exhaustion in chimeric antigen receptor (CAR) T-cell immunotherapies.

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Prostate Cancer Epigenetic Biomarkers: Next-Generation Technologies

A review of recent epigenetic discoveries in prostate cancer, highlighting their potential as biomarkers for diagnosis, segmentation, and monitoring.

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methylation field guide
Field Guide to Methylation Methods

This overview of array- and sequencing-based methylation methods provides a useful resource for cancer epigenetics studies.

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Methylation Researcher
DNA Methylation Analysis

Compare methylation sequencing and microarray approaches, and determine the best strategy for your research.

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