Jorge González-Domínguez

Learn More
The growing complexity in computer system hierarchies due to the increase in the number of cores per processor, levels of cache (some of them shared) and the number of processors per node, as well as the high-speed interconnects, demands the use of new optimization techniques and libraries that take advantage of their features. In this paper Servet, a suite(More)
To efficiently scale dense linear algebra problems to future exascale systems, communication cost must be avoided or overlapped. Communication-avoiding 2.5D algorithms improve scalability by reducing inter-processor data transfer volume at the cost of extra memory usage. Communication overlap attempts to hide messaging latency by pipelining messages and(More)
Behçet's disease is a multisystemic disease affecting most organs. Although a tendency towards an association with a certain genetic type and with HLA-B51 is suspected, the incidence of several siblings with Behçet's disease in a single family is rare. A family, in which three sisters were affected with Behçet's disease, uveitis being the most severe(More)
UNLABELLED 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 can increase memory requirements and computational time of downstream analysis. In this work we present ParDRe, a de novo parallel tool to remove(More)
The increasing number of cores per processor is turning manycore-based systems in pervasive. This involves dealing with multiple levels of memory in non uniform memory access (NUMA) systems and processor cores hierarchies, accessible via complex interconnects in order to dispatch the increasing amount of data required by the processing elements. The key for(More)
Genotype-by-genotype interactions (epistasis) are believed to be a significant source of unexplained genetic variation causing complex chronic diseases but have been ignored in genomewide association studies (GWAS) due to the computational burden of analysis. In this work we show how to benefit from FPGA technology for highly parallel creation of(More)
OBJECTIVE To investigate the possible association between HLA antigens and adverse reactions to gold sodium thiomalate therapy (GSTM). METHODS Ninety consecutive patients with rheumatoid arthritis (RA) were studied for possible association between HLA antigens and adverse reactions to GSTM therapy. RESULTS HLA-DR5 was significantly increased in patients(More)
Servet is a suite of benchmarks focused on detecting a set of parameters with high influence on the overall performance of multicore systems. These parameters can be used for autotuning codes to increase their performance on multicore clusters. Although Servet has been proved to detect accurately cache hierarchies, bandwidths and bottlenecks in memory(More)
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 Association Studies is an important but time consuming operation since statistical computations have to be performed for each pair of measured(More)
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 to obtain high quality mappings at the expense of long execution times. Finding fast yet accurate software solutions is of high importance to(More)