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The brain processes sensory information rapidly due to parallel processing, which involves sending data across multiple neural pathways at the same time. This method allows the brain to manage various sensory qualities, such as shapes, colors, movements, and locations, all concurrently. For instance, when observing a forest landscape, the brain simultaneously processes the movement of leaves, the shapes of trees, the depth between them, and the various shades of green. This enables a quick and...
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An Approach to Parallel Algorithms for Long DNA Sequences Alignment on Manycore Architecture.

Evaldo Bezerra Costa1, Gabriel Pereira Silva1, Marcello Goulart Teixeira1

  • 1Computer Science Department, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
|January 7, 2020
PubMed
Summary

New bioinformatic tools are needed to align long DNA reads generated by PacBio sequencing. This article presents techniques for long DNA sequence alignment using manycore architecture to handle large datasets.

Keywords:
DNA sequencePacBioaligningchallengesdevelopment

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • DNA sequencing technologies have advanced rapidly, producing vast amounts of data.
  • PacBio sequencing generates long reads, posing storage and analysis challenges.
  • Efficient alignment of long DNA sequences is crucial for genomic analysis.

Purpose of the Study:

  • To describe techniques and processes for long DNA sequence alignment.
  • To address the challenge of aligning large datasets from PacBio sequencing.
  • To leverage manycore architecture for efficient sequence alignment.

Main Methods:

  • Development of bioinformatic tools for sequence alignment.
  • Implementation of alignment techniques on manycore architectures.
  • Focus on processing long reads generated by PacBio single molecule real-time sequencing.

Main Results:

  • The article details specific techniques for long DNA sequence alignment.
  • It demonstrates the application of these techniques using manycore architecture.
  • The developed processes are designed to handle the scale of PacBio data.

Conclusions:

  • Manycore architecture offers a viable solution for aligning long DNA sequences.
  • Efficient bioinformatic tools are essential for managing large-scale sequencing data.
  • The described methods facilitate the analysis of PacBio generated long reads.