Now showing items 1-6 of 6

  • Exploiting different levels of parallelism in the biological sequence comparison problem 

    Sánchez Castaño, Friman; Ramírez Bellido, Alejandro; Valero Cortés, Mateo (2009-04-23)
    Conference report
    Open Access
    In the last years the fast growth of bioinformatics field has atracted the attention of computer scientists. At the same time, de exponential growth of databases that contains biological information (such as protein and ...
  • Long DNA sequence comparison on multicore architectures 

    Sánchez Castaño, Friman; Cabarcas, Felipe; Ramírez Bellido, Alejandro; Valero Cortés, Mateo (Springer Verlag, 2010)
    Conference report
    Restricted access - publisher's policy
    Biological sequence comparison is one of the most important tasks in Bioinformatics. Due to the growth of biological databases, sequence comparison is becoming an important challenge for high performance computing, ...
  • Preliminary analysis of the cell BE processor limitations for sequence alignment applications 

    Isaza, Sebastian; Sánchez Castaño, Friman; Gaydadjiev, Georgi; Ramírez Bellido, Alejandro; Valero Cortés, Mateo (Springer, 2008-07-21)
    Conference report
    Restricted access - publisher's policy
    The fast growth of bioinformatics field has attracted the attention of computer scientists in the last few years. At the same time the increasing database sizes require greater efforts to improve the computational performance. ...
  • Quantitative analysis of sequence alignment applications on multiprocessor architectures 

    Sánchez Castaño, Friman; Ramírez Bellido, Alejandro; Valero Cortés, Mateo (ACM Press. Association for Computing Machinery, 2009)
    Conference report
    Restricted access - publisher's policy
    The exponential growth of databases that contains biological information (such as protein and DNA data) demands great efforts to improve the performance of computational platforms. In this work we investigate how bioinformatics ...
  • Scalability analysis of progressive alignment in a multicore 

    Isaza, Sebastian; Sánchez Castaño, Friman; Gaydadjiev, Georgi; Ramírez Bellido, Alejandro; Valero Cortés, Mateo (IEEE Press. Institute of Electrical and Electronics Engineers, 2010)
    Conference report
    Open Access
    Sequence alignment is a fundamental instrument in Bioinformatics. In recent years, numerous proposals have been addressing the problem of accelerating this class of applications. This, due to the rapid growth of sequence ...
  • The SARC architecture 

    Gaydadjiev, Georgi; Isaza, Sebastian; Ramírez Bellido, Alejandro; Cabarcas, Felipe; Juurlink, Ben; Álvarez Mesa, Mauricio; Sánchez Castaño, Friman; Azevedo, Arnaldo; Meenderinck, Cor; Ciobanu, Catalin (2010-10)
    Article
    Open Access
    The SARC architecture is composed of multiple processor types and a set of user-managed direct memory access (DMA) engines that let the runtime scheduler overlap data transfer and computation. The runtime system automatically ...