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

Background: Bioinformatics research comes into an era of big data. Mining potential value in
biological big data for scientific research and health care field has the vital significance …

Graphics Processing Units (GPUs) exploit large amounts of threadlevel parallelism to
provide high instruction throughput and to efficiently hide long-latency stalls. The resulting …

In order to tackle the programming challenges related to heterogeneous computing, Intel
recently introduced oneAPI, which is a new programming environment that allows code …

Intrinsically disorder proteins (IDPs) constitute a significant part of proteins that exist and act
in cells of living organisms. IDPs play key roles in central cellular processes and some of …

Four representations and parametrizations of orthogonal matrices Q∈ R m× n in terms of the
minimal number of essential parameters {φ} are discussed: the exponential representation …

GPUs are used in many settings to accelerate large-scale scientific computation, including
simulation, computational biology, and molecular dynamics. However, optimizing codes to …

Background Protein comparative analysis and similarity searches play essential roles in
structural bioinformatics. A couple of algorithms for protein structure alignments have been …

Abstract 3D protein structure similarity searching is one of the important processes
performed in structural bioinformatics, since it allows for protein function identification and …

In this paper, we propose an optimized parallel scheme based on graphics processor unit
(GPU) for simulating thermal induced ultrafast magnetization dynamics model using finite …