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Introduction to High-Performance Computing
Since the first general-purpose computing machines came up in the middle of the twentieth century, computer science’s popularity has been growing...
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High Performance Computing for Drug Discovery and Biomedicine
This volume explores the application of high-performance computing (HPC) technologies to computational drug discovery (CDD) and biomedicine. The...
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Profiling the BLAST bioinformatics application for load balancing on high-performance computing clusters
BackgroundThe Basic Local Alignment Search Tool (BLAST) is a suite of commonly used algorithms for identifying matches between biological sequences....
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Accelerating COVID-19 Drug Discovery with High-Performance Computing
The recent COVID-19 pandemic has served as a timely reminder that the existing drug discovery is a laborious, expensive, and slow process. Never has...
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Edge, Fog, and Cloud Against Disease: The Potential of High-Performance Cloud Computing for Pharma Drug Discovery
The high-performance computing (HPC) platform for large-scale drug discovery simulation demands significant investment in speciality hardware,...
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A high-performance computational workflow to accelerate GATK SNP detection across a 25-genome dataset
BackgroundSingle-nucleotide polymorphisms (SNPs) are the most widely used form of molecular genetic variation studies. As reference genomes and...
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High-Performance Algorithms for Mass Spectrometry-Based Omics
To date, processing of high-throughput Mass Spectrometry (MS) data is accomplished using serial algorithms. Develo** new methods to process MS data...
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MoDLE: high-performance stochastic modeling of DNA loop extrusion interactions
DNA loop extrusion emerges as a key process establishing genome structure and function. We introduce MoDLE, a computational tool for fast, stochastic...
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High-Performance Computing Strategy Using Distributed-Memory Supercomputers
Database peptide search is the most commonly employed computational technique to deduce peptides from the experimentally obtained mass spectrometry...
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Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images
Microscopy-based spatially resolved omic methods are transforming the life sciences. However, these methods rely on high numerical aperture...
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PyMulSim: a method for computing node similarities between multilayer networks via graph isomorphism networks
BackgroundIn bioinformatics, interactions are modelled as networks, based on graph models. Generally, these support a single-layer structure which...
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High-Performance Framework to Analyze Microarray Data
Pharmacogenomics is an important research field that studies the impact of genetic variation of patients on drug responses, looking for correlations...
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Quantum Computing: Promises and Challenges
Progress in digital healthcare and evidence-based medicine implies constantly growing demand for high-performance computing, and a strong cooperation...
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Sequre: a high-performance framework for secure multiparty computation enables biomedical data sharing
Secure multiparty computation (MPC) is a cryptographic tool that allows computation on top of sensitive biomedical data without revealing private...
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Need for High-Performance Computing for MS-Based Omics Data Analysis
For the past 30 years, significant efforts were invested for the development of designing and implementing more efficient scoringScoring functions...
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Accelerating imputation of missing genotypes using parallel computing
Owing to massive jump in DNA technology, large-scale genomic datasets, including valuable information, have become available. While this is a...
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ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community
BackgroundThe advent of Next Generation Sequencing (NGS) technologies and the concomitant reduction in sequencing costs allows unprecedented high...
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RGMQL: scalable and interoperable computing of heterogeneous omics big data and metadata in R/Bioconductor
BackgroundHeterogeneous omics data, increasingly collected through high-throughput technologies, can contain hidden answers to very important and...
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Deep distributed computing to reconstruct extremely large lineage trees
Phylogeny estimation (the reconstruction of evolutionary trees) has recently been applied to CRISPR-based cell lineage tracing, allowing the...
