Listar Grupo de Arquitectura de Computadores (GAC) por título
Mostrando ítems 154-173 de 233
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Parallel and Scalable Short-Read Alignment on Multi-Core Clusters Using UPC++
(Johannes Gutenberg University Mainz, 2016)[Abstract]: The growth of next-generation sequencing (NGS) datasets poses a challenge to the alignment of reads to reference genomes in terms of alignment quality and execution speed. Some available aligners have been shown ... -
Parallel ant colony optimization for the training of cell signaling networks
(Elsevier, 2022)[Abstract]: Acquiring a functional comprehension of the deregulation of cell signaling networks in disease allows progress in the development of new therapies and drugs. Computational models are becoming increasingly popular ... -
Parallel Brownian dynamics simulations with the message-passing and PGAS programming models
(Elsevier BV, 2013-04)[Abstract] The simulation of particle dynamics is among the most important mechanisms to study the behavior of molecules in a medium under specific conditions of temperature and density. Several models can be used to compute ... -
Parallel definition of tear film maps on distributed-memory clusters for the support of dry eye diagnosis
(Elsevier Ireland Ltd., 2017)[Abstract] Background and objectives The analysis of the interference patterns on the tear film lipid layer is a useful clinical test to diagnose dry eye syndrome. This task can be automated with a high degree of accuracy ... -
Parallel feature selection for distributed-memory clusters
(2019)[Abstract]: Feature selection is nowadays an extremely important data mining stage in the field of machine learning due to the appearance of problems of high dimensionality. In the literature there are numerous feature ... -
Parallel Hierarchical Radiosity on Hybrid Platforms
(Springer Verlag, 2011-12)[Abstract] Achieving an efficient realistic illumination is an important aim of research in computer graphics. In this paper a new parallel global illumination method for hybrid systems based on the hierarchical radiosity ... -
Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures
(Institute of Electrical and Electronics Engineers, 2016-08)[Abstract] Development of new methods to detect pairwise epistasis, such as SNP-SNP interactions, in Genome-Wide Association Studies is an important task in bioinformatics as they can help to explain genetic influences on ... -
Parallel simulation of Brownian dynamics on shared memory systems with OpenMP and Unified Parallel C
(Springer New York LLC, 2013-09)[Abstract] The simulation of particle dynamics is an essential method to analyze and predict the behavior of molecules in a given medium. This work presents the design and implementation of a parallel simulation of Brownian ... -
Parallel Sparse Modified Gram-Schmidt QR Decomposition
(Springer, 1996)[Abstract] We present a parallel computational method for the QR decomposition with column pivoting of a sparse matrix by means of Modified Gram-Schmidt orthogonalization. Nonzero elements of the matrix M to be decomposed ... -
Parallel-FST: A feature selection library for multicore clusters
(Elsevier, 2022-11)[Abstract]: Feature selection is a subfield of machine learning focused on reducing the dimensionality of datasets by performing a computationally intensive process. This work presents Parallel-FST, a publicly available ... -
Parallelization of ARACNe, an Algorithm for the Reconstruction of Gene Regulatory Networks
(M D P I AG, 2019-07-31)[Abstract] Gene regulatory networks are graphical representations of molecular regulators that interact with each other and with other substances in the cell to govern the gene expression. There are different computational ... -
Parallelization of shallow water simulations on current multi-threaded systems
(SAGE Journals, 2013-11)[Abstract]: In this work, several parallel implementations of a numerical model of pollutant transport on a shallow water system are presented. These parallel implementations are developed in two phases. First, the sequential ... -
Parallelizing Epistasis Detection in GWAS on FPGA and GPU-Accelerated Computing Systems
(Institute of Electrical and Electronics Engineers, 2015)[Abstract] High-throughput genotyping technologies (such as SNP-arrays) allow the rapid collection of up to a few million genetic markers of an individual. Detecting epistasis (based on 2-SNP interactions) in Genome-Wide ... -
Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy
(BioMed Central Ltd., 2017)[Abstract] Background The development of large-scale kinetic models is one of the current key issues in computational systems biology and bioinformatics. Here we consider the problem of parameter estimation in nonlinear ... -
PARamrfinder: detecting allele-specific DNA methylation on multicore clusters
(Springer, 2024-01)[Abstract]: The discovery of Allele-Specific Methylation (ASM) is an important research field in biology as it regulates genomic imprinting, which has been identified as the cause of some genetic diseases. Nevertheless, ... -
ParBiBit: Parallel tool for binary biclustering on modern distributed-memory systems
(PLoS, 2018)[Abstract]: Biclustering techniques are gaining attention in the analysis of large-scale datasets as they identify two-dimensional submatrices where both rows and columns are correlated. In this work we present ParBiBit, ... -
ParDRe: faster parallel duplicated reads removal tool for sequencing studies
(Oxford University Press, 2016)[Abstract] Summary: Current next generation sequencing technologies often generate duplicated or near-duplicated reads that (depending on the application scenario) do not provide any interesting biological information but ... -
ParRADMeth: Identification of Differentially Methylated Regions on Multicore Clusters
(IEEE, 2023)[Abstract]: The discovery of Differentially Methylated (DM) regions is an important research field in biology, as it can help to anticipate the risk of suffering from specific diseases. Nevertheless, the high computational ... -
parSRA: A framework for the parallel execution of short read aligners on compute clusters
(2018)[Abstract]: The growth of next generation sequencing datasets poses as a challenge to the alignment of reads to reference genomes in terms of both accuracy and speed. In this work we present parSRA, a parallel framework ... -
PATO: genome-wide prediction of lncRNA-DNA triple helices
(Oxford University Press, 2023-03)[Abstract]: Motivation: Long non-coding RNA (lncRNA) plays a key role in many biological processes. For instance, lncRNA regulates chromatin using different molecular mechanisms, including direct RNA-DNA hybridization via ...
