Methods for high-throughput MethylCap-Seq data analysis.

ABSTRACT:

Background

Advances in whole genome profiling have revolutionized the cancer research field, but at the same time have raised new bioinformatics challenges. For next generation sequencing (NGS), these include data storage, computational costs, sequence processing and alignment, delineating appropriate statistical measures, and data visualization. Currently there is a lack of workflows for efficient analysis of large, MethylCap-seq datasets containing multiple sample groups.

Methods

The NGS application MethylCap-seq involves the in vitro capture of methylated DNA and subsequent analysis of enriched fragments by massively parallel sequencing. The workflow we describe performs MethylCap-seq experimental Quality Control (QC), sequence file processing and alignment, differential

SUBMITTER: Rodriguez BA 

PROVIDER: S-EPMC3481483 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature