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BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing

2011; Oxford University Press; Volume: 39; Issue: suppl_2 Linguagem: Inglês

10.1093/nar/gkr312

1362-4962

Pavlo Lutsik, Lars Feuerbach, Julia Arand, Thomas Lengauer, Jörn Walter, Christoph Bock,

RNA modifications and cancer

Bisulfite sequencing is a widely used method for measuring DNA methylation in eukaryotic genomes. The assay provides single-base pair resolution and, given sufficient sequencing depth, its quantitative accuracy is excellent. High-throughput sequencing of bisulfite-converted DNA can be applied either genome wide or targeted to a defined set of genomic loci (e.g. using locus-specific PCR primers or DNA capture probes). Here, we describe BiQ Analyzer HT ( http://biq-analyzer-ht.bioinf.mpi-inf.mpg.de/ ), a user-friendly software tool that supports locus-specific analysis and visualization of high-throughput bisulfite sequencing data. The software facilitates the shift from time-consuming clonal bisulfite sequencing to the more quantitative and cost-efficient use of high-throughput sequencing for studying locus-specific DNA methylation patterns. In addition, it is useful for locus-specific visualization of genome-wide bisulfite sequencing data.