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EnglishThe 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.
PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads / Campagna, Davide; Telatin, Andrea; Forcato, Claudio; Vitulo, Nicola; Valle, Giorgio. - In: BIOINFORMATICS. - ISSN 1367-4803. - 29:2(2013), pp. 268-270.
| Titolo: | PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads |
| Autori: | |
| Data di pubblicazione: | 2013 |
| Rivista: | |
| Citazione: | PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads / Campagna, Davide; Telatin, Andrea; Forcato, Claudio; Vitulo, Nicola; Valle, Giorgio. - In: BIOINFORMATICS. - ISSN 1367-4803. - 29:2(2013), pp. 268-270. |
| 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. |
| Handle: | http://hdl.handle.net/11562/963635 |
| Appare nelle tipologie: | 01.01 Articolo in Rivista |
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