Expansions of short tandem repeats are genetic variants that have been implicated in
several neuropsychiatric and other disorders, but their assessment remains challenging with …

Motivation Computing the uniqueness of k-mers for each position of a genome while
allowing for up to e mismatches is computationally challenging. However, it is crucial for …

The ability to detect recombination in pathogen genomes is crucial to the accuracy of
phylogenetic analysis and consequently to forecasting the spread of infectious diseases and …

The iCLIP and eCLIP techniques facilitate the detection of protein–RNA interaction sites at
high resolution, based on diagnostic events at crosslink sites. However, previous methods …

The increasing incidence of bloodstream infections including sepsis is a major challenge in
intensive care units worldwide. However, current diagnostics for pathogen identification …

The increasing complexity of data and analysis methods has created an environment where
scientists, who may not have formal training, are finding themselves playing the impromptu …

Abstract Motivation Oxford Nanopore Technologies (ONT) sequencing has become very
popular over the past few years and offers a cost-effective solution for many genomic and …

Food profiling is an essential step in any food monitoring system needed to prevent health
risks and potential frauds in the food industry. Significant improvements in sequencing …

Background Bioinformatic workflows frequently make use of automated genome assembly
and protein clustering tools. At the core of most of these tools, a significant portion of …

We present a novel data structure for searching sequences in large databases: the
Hierarchical Interleaved Bloom Filter (HIBF). It is extremely fast and space efficient, yet so …