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» Assembly of Large Genomes from Paired Short Reads
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BMCBI
2010
161views more  BMCBI 2010»
13 years 5 months ago
LTC: a novel algorithm to improve the efficiency of contig assembly for physical mapping in complex genomes
Background: Physical maps are the substrate of genome sequencing and map-based cloning and their construction relies on the accurate assembly of BAC clones into large contigs that...
Zeev Frenkel, Etienne Paux, David I. Mester, Cathe...
CSB
2005
IEEE
132views Bioinformatics» more  CSB 2005»
13 years 9 months ago
A Fast Shotgun Assembly Heuristic
Genome sequencing opened a new era in genetics allowing the study of genomes at the nucleotide level. However, the chosen method of sequencing produced large numbers of nucleotide...
Christopher Wilks, Sami Khuri
BMCBI
2010
148views more  BMCBI 2010»
13 years 7 months ago
Calling SNPs without a reference sequence
Background: The most common application for the next-generation sequencing technologies is resequencing, where short reads from the genome of an individual are aligned to a refere...
Aakrosh Ratan, Yu Zhang, Vanessa M. Hayes, Stephan...
BMCBI
2011
13 years 2 months ago
RAIphy: Phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles
Background: Computational analysis of metagenomes requires the taxonomical assignment of the genome contigs assembled from DNA reads of environmental samples. Because of the diver...
Ozkan U. Nalbantoglu, Samuel F. Way, Steven H. Hin...
CEC
2008
IEEE
14 years 2 months ago
A self-adaptive cellular memetic algorithm for the DNA fragment assembly problem
Abstract— The DNA fragment assembly problem is to reconstruct a DNA chain from multiple fragments that have previously been sequenced in a laboratory. This is a critical step in ...
Bernabé Dorronsoro, Enrique Alba, Gabriel L...