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» A new approach to fragment assembly in DNA sequencing
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BMCBI
2007
104views more  BMCBI 2007»
13 years 7 months ago
A response to Yu et al. "A forward-backward fragment assembling algorithm for the identification of genomic amplification and de
Background: Yu et al. (BMC Bioinformatics 2007,8: 145+) have recently compared the performance of several methods for the detection of genomic amplification and deletion breakpoin...
Oscar M. Rueda, Ramón Díaz-Uriarte
IPPS
2009
IEEE
14 years 2 months ago
Accelerating error correction in high-throughput short-read DNA sequencing data with CUDA
Emerging DNA sequencing technologies open up exciting new opportunities for genome sequencing by generating read data with a massive throughput. However, produced reads are signif...
Haixiang Shi, Bertil Schmidt, Weiguo Liu, Wolfgang...
BMCBI
2008
132views more  BMCBI 2008»
13 years 7 months ago
The Average Mutual Information Profile as a Genomic Signature
Background: Occult organizational structures in DNA sequences may hold the key to understanding functional and evolutionary aspects of the DNA molecule. Such structures can also p...
Mark Bauer, Sheldon M. Schuster, Khalid Sayood
CDB
2004
Springer
172views Database» more  CDB 2004»
14 years 22 days ago
Constraint Database Solutions to the Genome Map Assembly Problem
Abstract. Long DNA sequences have to be cut using restriction enzymes into small fragments whose lengths and/or nucleotide sequences can be analyzed by currently available technolo...
Viswanathan Ramanathan, Peter Z. Revesz
WABI
2001
Springer
134views Bioinformatics» more  WABI 2001»
13 years 11 months ago
Comparing Assemblies Using Fragments and Mate-Pairs
Using current technology, large consecutive stretches of DNA (such as whole chromosomes) are usually assembled from short fragments obtained by shotgun sequencing, or from fragment...
Daniel H. Huson, Aaron L. Halpern, Zhongwu Lai, Eu...