Results 31 to 40 of about 152,624 (261)
Tedna: a transposable element de novo assembler [PDF]
Bioinformatics, 2014 Abstract Motivation : Recent technological advances are allowing many laboratories to sequence their research organisms. Available de novo assemblers leave repetitive portions of the genome poorly assembled. Some genomes contain high proportions of transposable elements, and transposable elements appear to be a major force behind ...
Zytnicki, Matthias +2 more
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Genomics Data, 2015 Advent of Next Generation Sequencing has led to possibilities of de novo transcriptome assembly of organisms without availability of complete genome sequence.
Kiran Gopinath Bankar +3 more
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De novo assembly of highly diverse viral populations [PDF]
BMC Genomics, 2012 Extensive genetic diversity in viral populations within infected hosts and the divergence of variants from existing reference genomes impede the analysis of deep viral sequencing data. A de novo population consensus assembly is valuable both as a single linear representation of the population and as a backbone on which intra-host variants can be ...
Yang Xiao +9 more
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Metassembler: merging and optimizing de novo genome assemblies [PDF]
Genome Biology, 2015 Abstract Genome assembly projects typically run multiple algorithms in an attempt to find the single best assembly, although those assemblies often have complementary, if untapped, strengths and weaknesses. We present our metassembler algorithm that merges multiple assemblies of a genome into a single superior ...
Hernandez Wences, Alejandro +1 more
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Comparing de novo assemblers for 454 transcriptome data [PDF]
BMC Genomics, 2010 Roche 454 pyrosequencing has become a method of choice for generating transcriptome data from non-model organisms. Once the tens to hundreds of thousands of short (250-450 base) reads have been produced, it is important to correctly assemble these to estimate the sequence of all the transcripts. Most transcriptome assembly projects use only one program
Kumar, Sujai, Blaxter, Mark L
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A comparative evaluation of genome assembly reconciliation tools
Genome Biology, 2017 Background The majority of eukaryotic genomes are unfinished due to the algorithmic challenges of assembling them. A variety of assembly and scaffolding tools are available, but it is not always obvious which tool or parameters to use for a specific ...
Hind Alhakami +2 more
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G3: Genes, Genomes, Genetics, 2020 In recent years, improved sequencing technology and computational tools have made de novo genome assembly more accessible. Many approaches, however, generate either an unphased or only partially resolved representation of a diploid genome, in which ...
llya Soifer +14 more
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De Novo Assembly of Highly Substituted Morpholines and Piperazines [PDF]
Organic Letters, 2017 The morpholine and piperazine with their remarkable physical and biochemical properties are popular heterocycles in organic and medicinal chemistry used in rational property design. However, in the majority of cases these rings are added to an existing molecule in a building block approach thus limiting their substitution pattern and diversity. Here we
Patil +5 more
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dnAQET: a framework to compute a consolidated metric for benchmarking quality of de novo assemblies
BMC Genomics, 2019 Background Accurate de novo genome assembly has become reality with the advancements in sequencing technology. With the ever-increasing number of de novo genome assembly tools, assessing the quality of assemblies has become of great importance in genome ...
Gokhan Yavas, Huixiao Hong, Wenming Xiao
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NSIT: novel sequence identification tool. [PDF]
PLoS ONE, 2014 Novel sequences are DNA sequences present in an individual's genome but absent in the human reference assembly. They are predicted to be biologically important, both individual and population specific, and consistent with the known human migration paths.
Benjarath Pupacdi +3 more
doaj +1 more source