A multi-threaded DNA tag/anti-tag library generator for multi-core platforms

机译：用于多核平台的多线程DNA标签/反标签库生成器

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This paper describes a new approach to the problem of generating DNA tag/anti-tag libraries for use in biological assay methods. This approach couples multi-threaded coding methods and a highly parallel multi-population genetic algorithm to leverage performance gains made possible by the multi-core CPUs increasingly prevalent in today's commodity computers. We also describe the results of experiments characterizing the performance of this approach, which can yield up to an 8X speedup on a workstation equipped with dual quad-core CPUs. We observe that the coding effort required to implement this approach using the C language and Pthreads parallel programming model is greatly reduced compared to previous methods using both the VHDL language and reconfigurable hardware (FPGAs), and compared to C with the MPI API run on a cluster of computers.

机译：本文介绍了一种用于生物学检测方法中产生DNA标签/抗标签文库问题的新方法。这种方法将多线程编码方法与高度并行的多种群遗传算法结合在一起，以利用当今商用计算机中越来越普遍的多核CPU所带来的性能提升。我们还描述了表征这种方法性能的实验结果，在配备有双四核CPU的工作站上，这种方法可以使速度提高8倍。我们观察到，与使用VHDL语言和可重配置硬件（FPGA）的先前方法相比，使用C语言和Pthreads并行编程模型实现此方法所需的编码工作大大减少，并且与在MPI API上运行C的情况相比计算机集群。

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《Computational Intelligence in Bioinformatics and Computational Biology, 2009. CIBCB '09》|2009年|168-175|共8页
会议地点 Nashville TN(US);Nashville TN(US)
作者
Ravindran A.; Burns D.J.;
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Dept. of Electr. Comput. Eng., Univ. of North Carolina, Charlotte, NC;

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C language; field programmable gate arrays; genetic algorithms; hardware description languages; microcomputers; multi-threading; parallel programming; FPGA; MPI API; Pthreads parallel programming model; VHDL language; anti-tag library generator; biological assay methods; dual quad-core CPU; multi-core CPU; multi-core platforms; multi-threaded DNA tag library generator; multi-threaded coding methods; parallel multi-population genetic algorithm; reconfigurable hardware;

机译：C语言;现场可编程门阵列;遗传算法;硬件描述语言;微型计算机;多线程;并行编程; FPGA; MPI API; Pthreads并行编程模型; VHDL语言;反标签库生成器;生物测定方法;双四元核心CPU;多核CPU;多核平台;多线程DNA标签库生成器;多线程编码方法;并行多种群遗传算法;可重构硬件;

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1. Multi-Threaded Computation of the Sobel Image Gradient on Intel Multi-Core Processors Using OpenMP Library [J] . Ahmed Sherif Zekri International Journal of Computer Science & Information Technology (IJCSIT) . 2016,第2期

机译：使用OpenMP库在Intel多核处理器上进行Sobel图像梯度的多线程计算
2. Tag/anti-tag liquid-phase primer extension array: a flexible and versatile genotyping platform. [J] . Li JG, Liljedahl U, Heng CK Genomics . 2006,第1期

机译：标签/反标签液相引物延伸阵列：灵活而通用的基因分型平台。
3. Dynamic Partition of Shared Cache for Multi-Threaded Application in Multi-Core System [J] . Shuo Li, Feng Wu Key Engineering Materials . 2010,第pta2期

机译：多核系统中多线程应用程序共享缓存的动态分区
4. A Multi-Threaded DNA Tag/Anti-tag Library Generator for Multi-Core Platforms [C] . Arun Ravindran, Daniel J. Burns IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology . 2009

机译：用于多核平台的多线DNA标签/防标图库生成器
5. Development of methods for the isolation and cloning of metagenomic DNA, and screening of metagenomic libraries for anticancer and antifungal activity. [D] . Eagly, Rebecca R. 2006

机译：开发了用于分离和克隆宏基因组DNA的方法，并筛选宏基因组文库的抗癌和抗真菌活性。
6. Contribution to Speeding-Up the Solving of Nonlinear Ordinary Differential Equations on Parallel/Multi-Core Platforms for Sensing Systems [O] . Vahid Tavakkoli, Kabeh Mohsenzadegan, Jean Chamberlain Chedjou, 2020

机译：用于加速对照对传感系统并行/多核平台的非线性常微分方程的贡献
7. Tag/anti-tag liquid-phase primer extension array: A flexible and versatile genotyping platform [O] . Li Jing-Guang, Liljedahl Ulrika, Heng Chew-Kiat 2006

机译：标签/反标签液相引物延伸阵列：灵活且通用的基因分型平台
8. Multi-Threaded DNA Tag/Anti-Tag Library Generator for Multi-Core Platforms [R] . Ravinfran, A. 2009

机译：用于多核平台的多线程DNa标签/反标签库生成器

A multi-threaded DNA tag/anti-tag library generator for multi-core platforms

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