B-SOLANA: an approach for the analysis of two-base encoding bisulfite sequencing data.

Authors:
Benjamin Kreck, George Marnellos, Julia Richter, Felix Krueger, Reiner Siebert, Andre Franke
Year of publication:
2012
Volume:
28
Issue:
3
Issn:
1367-4803
Journal title abbreviated:
BIOINFORMATICS
Journal title long:
Bioinformatics
Impact factor:
5.766
Abstract: 
Supplementary data are available at Bioinformatics online.b.kreck@ikmb.uni-kiel.deThe source code, released under the GNU GPLv3 licence, is freely available at http://code.google.com/p/bsolana/.Bisulfite sequencing, a combination of bisulfite treatment and high-throughput sequencing, has proved to be a valuable method for measuring DNA methylation at single base resolution. Here, we present B-SOLANA, an approach for the analysis of two-base encoding (colorspace) bisulfite sequencing data on the SOLiD platform of Life Technologies. It includes the alignment of bisulfite sequences and the determination of methylation levels in CpG as well as non-CpG sequence contexts. B-SOLANA enables a fast and accurate analysis of large raw sequence datasets.