22,041 research outputs found
The Genomic HyperBrowser: inferential genomics at the sequence level
The immense increase in the generation of genomic scale data poses an unmet
analytical challenge, due to a lack of established methodology with the
required flexibility and power. We propose a first principled approach to
statistical analysis of sequence-level genomic information. We provide a
growing collection of generic biological investigations that query pairwise
relations between tracks, represented as mathematical objects, along the
genome. The Genomic HyperBrowser implements the approach and is available at
http://hyperbrowser.uio.no
Capturing the ‘ome’ : the expanding molecular toolbox for RNA and DNA library construction
All sequencing experiments and most functional genomics screens rely on the generation of libraries to comprehensively capture pools of targeted sequences. In the past decade especially, driven by the progress in the field of massively parallel sequencing, numerous studies have comprehensively assessed the impact of particular manipulations on library complexity and quality, and characterized the activities and specificities of several key enzymes used in library construction. Fortunately, careful protocol design and reagent choice can substantially mitigate many of these biases, and enable reliable representation of sequences in libraries. This review aims to guide the reader through the vast expanse of literature on the subject to promote informed library generation, independent of the application
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