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For example, the elements of a binary data matrix may represent the mutation status at a set of genomic positions (rows) in a collection of genomes (columns).
In this article, we proposed a compact representation for a collection of genomes (the reference multi-genome) that captures the genomic variations in the collection and presented BWBBLE, a BWT-based short-read aligner that operates on this compiled reference.
In this section, we describe how a single reference genome can be augmented with genomic variant information gathered from an arbitrary collection of genomes.
Context analysis relies on the availability of diverse sequence-based protein clusters across a large and phylogenetically rich collection of genomes.
Context analysis is based on the observation that functionally related genes are often having similar gene context and relies on the identification of such events across phylogenetically diverse collection of genomes.
In view of such diverse collection of genomes, revealing evolutionary trends and charting functional relationships of proteins remain challenging.
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Having selected a genomic model and a collection of genome operations to consider, the standard algorithmic problem is the computation of the distance between two genomes π and Γ, or the minimum number of allowable operations required to transform π into Γ; the more difficult problem of sorting demands the operations themselves.
The capability gap between the collection of genome data and the interpretation of it is widening faster than ever.
Meta-analysis based on the collection of genome-wide transcriptome data is useful to identify valuable information that is otherwise difficult to obtain from individual transcriptome data.
The Connectivity Map (also known as CMAP) is a collection of genome-wide transcriptional data from cultured human cells treated with different kinds of molecules.
The Connectivity Map is a collection of genome-wide transcriptional expression data from cultured human cells treated with bioactive small molecules [13].
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