Publications

Authors:

Campagna, Davide; Telatin, Andrea; Forcato, Claudio; Vitulo, Nicola; Valle, Giorgio

Title:

PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads

Year:

2013

Type of item:

Articolo in Rivista

Tipologia ANVUR:

Articolo su rivista

Language:

Inglese

Referee:

No

Name of journal:

BIOINFORMATICS

ISSN of journal:

1367-4803

N° Volume:

29

Number or Folder:

2

Page numbers:

268-270

Keyword:

Color; Genomics; Humans; Sequence Alignment; Algorithms; DNA Methylation; Sequence Analysis, DNA; Sulfites

Short description of contents:

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.

Product ID:

97717

Handle IRIS:

11562/963635

Last Modified:

December 1, 2022

Bibliographic citation:

Campagna, Davide; Telatin, Andrea; Forcato, Claudio; Vitulo, Nicola; Valle, Giorgio, PASS-bis: a bisulfite aligner suitable for whole methylome analysis of Illumina and SOLiD reads «BIOINFORMATICS» , vol. 29 , n. 2 , 2013 , pp. 268-270

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