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  4. Sequence assembly. Review
 
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2009
Journal Article
Title

Sequence assembly. Review

Abstract
Despite the rapidly increasing number of sequenced and re-sequenced genomes, many issues regarding the computational assembly of large-scale sequencing data have remain unresolved. Computational assembly is crucial in large genome projects as well for the evolving high-throughput technologies and plays an important role in processing the information generated by these methods. Here, we provide a comprehensive overview of the current publicly available sequence assembly programs. We describe the basic principles of computational assembly along with the main concerns, such as repetitive sequences in genomic DNA, highly expressed genes and alternative transcripts in EST sequences. We summarize existing comparisons of different assemblers and provide a detailed descriptions and directions for download of assembly programs at: http://genome.ku.dk/resources/assembly/methods.html.
Author(s)
Scheibye-Alsing, K.
Hoffmann, S.
Frankel, A.
Jensen, P.
Stadler, P.F.
Mang, Y.
Tommerup, N.
Gilchrist, M.J.
Nygard, A.B.
Cirera, S.
Jorgensen, C.B.
Fredholm, M.
Gorodkin, J.
Journal
Computational biology and chemistry  
DOI
10.1016/j.compbiolchem.2008.11.003
Language
English
Fraunhofer-Institut für Zelltherapie und Immunologie IZI  
Keyword(s)
  • assembly method

  • EST

  • shothun

  • genomes

  • high-throughput sequencing

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