DNA Methylation Analysis
The NASR provides several different platforms for DNA methylation analysis: the Capillary Electrophoresis-Based Assays (ABI 3730) and the Illumina GAII System.
Depending on the number of genes and samples being examined, the specific platform can be chosen and assigned.
Capillary Electrophoresis-Based Assays (ABI 3730)
Bisulphite conversion of unmethylated Cytosine is an easy and widely accepted method for detecting methylated CpGs. Sequencing bisulphite-treated DNA is the gold standard technique for methylation detection.
Bisulphite treatment (the bisulfate conversion of unmethylated Cytosines) of templates is usually performed by the investigator; the NASR performs methylation analysis using bisulphite sequencing. Additionally, the NASR can use SNaPshot® to quantitatively detect the base differences in treated and untreated samples to access the methylation status of test samples.
Illumina HiSeq 2000
DNA methylation status analysis can be achieved by the DNAMethylation-seq protocol. The application is for whole genome DNA methylation analysis, and the protocol is based on bisulfite conversion method to study all sites of methylation in the entire genomes. Methylation profiling can also be done by sequencing the meDIP pulldown material or the Invitrogen MethylMiner enriched material.