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Correction for Malde et al., Bioinformatics 21 (8) 1371-1375.
Bioinformatics 2005 21(13):3062; doi:10.1093/bioinformatics/bti510
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Published by Oxford University Press

Erratum


   A graph based algorithm for generating EST consensus sequences
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 A graph based algorithm...
References
 
K. Malde, E. Coward and I. Jonassen

The authors wish to apologise for omitting references to and discussion of some additional related methods.

An alternative to using a de Bruijn word graph as we do, is to use a partial order alignment (POA—Lee, 2003), a directed acyclic graph representing a (possibly multiple) alignment of sequences. Each node in the graph represents a set of positions, and edges connect nodes representing successive positions. While we derive the splice graph from the de Bruijn graph, Xing et al. (2004) use the predetermined multiple assembly represented in a POA as a starting point. They use a dynamic programming algorithm to identify possible splice variants from this graph.


   References
TOP
 A graph based algorithm...
 References
 
Lee,C. (2003) Generating consensus sequences from partial order multiple sequence alignment graphs. Bioinformatics, 19, 999–1008.

Xing,Y., Resch,A. and Lee,C. (2004) The multipassembly problem: reconstructing multiple transcript isoforms from EST fragment mixtures. Genome Res., 14, 426–441.


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This Article
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