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How long are long tandem repeats? A challenge for current methods of whole-genome sequence assembly: The case of satellites in caenorhabditis elegans

Author
Subirana, J.; Messeguer, X.
Type of activity
Journal article
Journal
Genes
Date of publication
2018-10-16
Volume
9
Number
10
First page
1
Last page
8
DOI
https://doi.org/10.3390/genes9100500 Open in new window
Project funding
Logic-Based Smart Solutions
Repository
http://hdl.handle.net/2117/124347 Open in new window
URL
https://www.mdpi.com/2073-4425/9/10/500 Open in new window
Abstract
Repetitive genome regions have been difficult to sequence, mainly because of the comparatively small size of the fragments used in assembly. Satellites or tandem repeats are very abundant in nematodes and offer an excellent playground to evaluate different assembly methods. Here, we compare the structure of satellites found in three different assemblies of the Caenorhabditis elegans genome: the original sequence obtained by Sanger sequencing, an assembly based on PacBio technology, and an assemb...
Citation
Subirana, J., Messeguer, X. How long are long tandem repeats? A challenge for current methods of whole-genome sequence assembly: The case of satellites in caenorhabditis elegans. "Genes", 16 Octubre 2018, vol. 9, núm. 10, p. 1-8.
Keywords
Caenorhabditis elegans, Genome sequencing, Satellite DNA, Tandem repeat sequences
Group of research
ALBCOM - Algorithms, Computational Biology, Complexity and Formal Methods
CEBIM - Molecular Biotechnology Centre

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