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Scientists at these institutions have tackled and solved complex problems of assembling, maintaining, and sharing large biodiversity databases, and routinely perform sophisticated analyses that provide the science underpinnings of policy.
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The problem of 'haplotype assembly' is the problem of assembling the two haplotypes for a chromosome given the collection of such fragments, or reads, and their locations in the haplotypes, which are pre-determined by mapping the reads to a reference genome.
We report here the first follow-up to the problem of assembling the Sp185/333 genes, and show how the shortcomings of shotgun assembly for these genes could be overcome by focusing on a single BAC insert, an easier task for a repeat-riddled region.
Transcriptome assembly, also known as novel transcript discovery or reconstruction, is the problem of assembling the full length transcript sequences from the RNA sequencing data.
Then there's the problem of assembling an international coalition.
Especially challenging has been the problem of assembling heterogeneous mixtures of data so as to exploit the relative advantage of each data type.
Assembly tools such as IDBA-UD are being developed and increasingly improved to address the specific problem of assembling mixtures of genomes as is eminent for metagenomic samples.
Ideally if the reads could be separated by their respective genomes the the problem of assembling them would be much more simple.
However, when the objective of research is not to obtain a complete genome but merely single sequence families, the problem of assembling contigs into more extended ones is less stringent.
Results: In this article, we tackle the problem of assembling highly repetitive regions by developing a novel algorithm that iteratively extends long paths through a series of read-overlap graphs and evaluates them based on a statistical framework.
The problem of assembling chromosome 16 is likely due in part to the highly duplicated MHC region in combination with the high repeat content in these regions.
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CEO of Professional Science Editing for Scientists @ prosciediting.com