Titlebook: Research in Computational Molecular Biology; 18th Annual Internat Roded Sharan Conference proceedings 2014 Springer International Publishin

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Tractatus: An Exact and Subquadratic Algorithm for Inferring Identical-by-Descent Multi-shared Haplhaplotype matrix. We introduce Tractatus, an exact algorithm for computing all IBD haplotype tracts in time linear in the size of the input, .(.). Tractatus resolves a long standing open problem, breaking optimally the (worst-case) quadratic time barrier of .(...) of previous methods often cited as

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An Alignment-Free Regression Approach for Estimating Allele-Specific Expression Using RNA-Seq Data,. Here, we study ASE in animals for which parental RNA-seq data are available. While most methods for determining ASE rely on read alignment, read alignment either leads to reference bias or requires knowledge of genomic variants in each parental strain. When RNA-seq data are available for both pare

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,AptaCluster – A Method to Cluster HT-SELEX Aptamer Pools and Lessons from Its Application,-stranded (ribo)nucleic molecules that bind to a given molecular target. Recently, new sequencing technologies have revolutionized the SELEX protocol by allowing for deep sequencing of the selection pools after each cycle. The emergence of High Throughput SELEX (HT-SELEX) has opened the field to new

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