Abstract Several studies in Bioinformatics, Computational Biology and Systems Biology rely
on the definition of physico-chemical or mathematical models of biological systems at …

The last decade has witnessed an explosion in the amount of available biological sequence
data, due to the rapid progress of high-throughput sequencing projects. However, the …

The BLAST sequence alignment program is a central application in bioinformatics. The de
facto standard version, NCBI BLAST, uses complex heuristics that make it challenging to …

Hardware accelerators are becoming increasingly commonplace in delivering high
performance computing solutions at a fraction of the cost of conventional supercomputers …

For biological applications, sequence alignment is an important strategy to analyze DNA
and protein sequences. Multiple sequence alignment is an essential methodology to study …

General-purpose graphics processing units (GPUs) have been found to be viable solutions
for large-scale numerical computations with an inherent potential for massive parallelism. In …

Multiple sequence alignment (MSA) constitutes an extremely powerful tool for many
biological applications including phylogenetic tree estimation, secondary structure …

The constant false alarm rate with convolution and pooling (CP-CFAR) method, which can
improve the detection efficiency via GPU parallel acceleration in the airborne synthetic …

Abstract Basic Local Alignment Search Tool (BLAST) is one of the most frequently used
algorithms for bioinformatics applications. In this paper, an accelerated implementation of …

The enormous growth in the amount of data generated by the life sciences is continuously
shifting the field from model-driven science towards data-driven science. The need for …