Evaluation of the Infinium Methylation 450K technology

Epigenomics
Sarah DedeurwaerderFrançois Fuks

Abstract

Studies of DNA methylomes hold enormous promise for biomedicine but are hampered by the technological challenges of analyzing many samples cost-effectively. Recently, a major extension of the previous Infinium HumanMethylation27 BeadChip® (Illumina, Inc. CA, USA), called Infinium HumanMethylation450 (Infinium Methylation 450K; Illumina, Inc. CA, USA) was developed. This upgraded technology is a hybrid of two different chemical assays, the Infinium I and Infinium II assays, allowing (for 12 samples in parallel) assessment of the methylation status of more than 480,000 cytosines distributed over the whole genome. In this article, we evaluate Infinium Methylation 450K on cell lines and tissue samples, highlighting some of its advantages but also some of its limitations. In particular, we compare the methylation values of the Infinium I and Infinium II assays. We used Infinium Methylation 450K to profile: first, the well-characterized HCT116 wild-type and double-knockout cell lines and then, 16 breast tissue samples (including eight normal and eight primary tumor samples). Absolute methylation values (β-values) were extracted with the GenomeStudio™ software and then subjected to detailed analysis. While this technology appeared hig...Continue Reading

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Methods Mentioned

BETA
electrophoresis
Methylation
PCR
Assay
genotyping

Related Concepts

Mammary Neoplasms, Human
Cytosine
Computer Programs and Programming
Genome, Human
DNA Methylation
Cdna Microarrays
High-Throughput Chemical Assays
Angiotensin II
Cytosine
DNA

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