Results 11 to 20 of about 2,597,991 (390)
BMC Genomics, 2009 Background We present here the assembly of the bovine genome. The assembly method combines the BAC plus WGS local assembly used for the rat and sea urchin with the whole genome shotgun (WGS) only assembly used for many other animal genomes including the ...
Sodergren Erica +15 more
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Optical map guided genome assembly [PDF]
BMC Bioinformatics, 2020 Background The long reads produced by third generation sequencing technologies have significantly boosted the results of genome assembly but still, genome-wide assemblies solely based on read data cannot be produced.
Miika Leinonen, Leena Salmela
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Comparative genome assembly [PDF]
Briefings in Bioinformatics, 2004 One of the most complex and computationally intensive tasks of genome sequence analysis is genome assembly. Even today, few centres have the resources, in both software and hardware, to assemble a genome from the thousands or millions of individual sequences generated in a whole-genome shotgun sequencing project.
Mihai, Pop +3 more
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HGGA: hierarchical guided genome assembler
BMC Bioinformatics, 2022 AbstractBackgroundDe novogenome assembly typically produces a set of contigs instead of the complete genome. Thus additional data such as genetic linkage maps, optical maps, or Hi-C data is needed to resolve the complete structure of the genome. Most of the previous work uses the additional data to order and orient contigs.ResultsHere we introduce a ...
Salmela Leena, Walve Riku
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Genome assembly of six polyploid potato genomes [PDF]
Scientific Data, 2020 AbstractGenome assembly of polyploid plant genomes is a laborious task as they contain more than two copies of the genome, are often highly heterozygous with a high level of repetitive DNA. Next Generation genome sequencing data representing one Chilean and five Peruvian polyploid potato (Solanum spp.) landrace genomes was used to construct genome ...
Maria Kyriakidou +4 more
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The MaSuRCA genome assembler [PDF]
Bioinformatics, 2013 Abstract Motivation: Second-generation sequencing technologies produce high coverage of the genome by short reads at a low cost, which has prompted development of new assembly methods. In particular, multiple algorithms based on de Bruijn graphs have been shown to be effective for the assembly problem.
Aleksey V, Zimin +5 more
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Maximum Likelihood Genome Assembly [PDF]
Journal of Computational Biology, 2009 Whole genome shotgun assembly is the process of taking many short sequenced segments (reads) and reconstructing the genome from which they originated. We demonstrate how the technique of bidirected network flow can be used to explicitly model the double-stranded nature of DNA for genome assembly.
Paul, Medvedev, Michael, Brudno
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B-assembler: a circular bacterial genome assembler
BMC Genomics, 2022 Abstract Background Accurate bacteria genome de novo assembly is fundamental to understand the evolution and pathogenesis of new bacteria species. The advent and popularity of Third-Generation Sequencing (TGS) enables assembly of bacteria genomes at an unprecedented speed. However, most current
Fengyuan Huang +7 more
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Improved reference genome of the arboviral vector Aedes albopictus [PDF]
, 2020 Background: The Asian tiger mosquito Aedes albopictus is globally expanding and has become the main vector for human arboviruses in Europe. With limited antiviral drugs and vaccines available, vector control is the primary approach to prevent mosquito ...
Akbari, Omar, +30 more
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Comparing memory-efficient genome assemblers on stand-alone and cloud infrastructures. [PDF]
PLoS ONE, 2013 A fundamental problem in bioinformatics is genome assembly. Next-generation sequencing (NGS) technologies produce large volumes of fragmented genome reads, which require large amounts of memory to assemble the complete genome efficiently.
Dimitrios Kleftogiannis +2 more
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