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- Title
PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads.
- Authors
Campagna, Davide; Telatin, Andrea; Forcato, Claudio; Vitulo, Nicola; Valle, Giorgio
- Abstract
The sequencing of bisulfite-treated DNA (Bi-Seq) is becoming a gold standard for methylation studies. The mapping of Bi-Seq reads is complex and requires special alignment algorithms. This problem is particularly relevant for SOLiD color space, where the bisulfite conversion C/T changes two adjacent colors into 16 possible combinations. Here, we present an algorithm that efficiently aligns Bi-Seq reads obtained either from SOLiD or Illumina. An accompanying methylation-caller program creates a genomic view of methylated and unmethylated Cs on both DNA strands.
- Publication
Bioinformatics (Oxford, England), 2013, Vol 29, Issue 2, p268
- ISSN
1367-4811
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/bts675