An FPGA accelerator of the wavefront algorithm for genomics pairwise alignment

A Haghi, S Marco-Sola, L Alvarez… - … Conference on Field …, 2021 - ieeexplore.ieee.org
In the last years, advances in next-generation sequencing technologies have enabled the
proliferation of genomic applications that guide personalized medicine. These applications …

WFA-FPGA: An efficient accelerator of the wavefront algorithm for short and long read genomics alignment

A Haghi, S Marco-Sola, L Alvarez… - Future Generation …, 2023 - Elsevier
In the last years, advances in genome sequencing technologies have enabled the
proliferation of genomic applications that guide personalized medicine. These applications …

Classification of the plant-associated lifestyle of Pseudomonas strains using genome properties and machine learning

W Poncheewin, AD van Diepeningen… - Scientific Reports, 2022 - nature.com
The rhizosphere, the region of soil surrounding roots of plants, is colonized by a unique
population of Plant Growth Promoting Rhizobacteria (PGPR). Many important PGPR as well …

[HTML][HTML] 生物医学大数据发展的新挑战与趋势

张国庆, 李亦学, 王泽峰, 赵国屏 - 中国科学院院刊, 2018 - zgkxyyk.alljournal.cn
生物医学数据从PB 量级的组学时代进入到EB 量级的多维度大数据时代, 引发了生物医学研究向
数据密集型的第四科学范式的深刻变革. 如何将临床数据与研究数据进行高维度多层次的汇交 …

Correcting palindromes in long reads after whole-genome amplification

S Warris, E Schijlen, H Van De Geest, R Vegesna… - BMC genomics, 2018 - Springer
Background Next-generation sequencing requires sufficient DNA to be available. If limited,
whole-genome amplification is applied to generate additional amounts of DNA. Such …

[PDF][PDF] Serial and parallel implementation of Needleman-Wunsch algorithm.

YS Lee, YS Kim, RL Uy - International Journal of Advances in Intelligent …, 2020 - core.ac.uk
Bioinformatics is a discipline that applies the principles of computer science, mathematics,
and engineering to answer questions related to Biology [1]. Notably, the pairwise sequence …

[PDF][PDF] A Review of the Smith-Waterman GPU Landscape

R Barnes - Berkeley: Electrical Engineering and …, 2020 - digitalassets.lib.berkeley.edu
A key step in the assembly of genomes is the identification of locally optimal alignments
between small subsections of the genome. The Smith-Waterman algorithm provides an …

Accelerating Smith-Waterman algorithm for faster sequence alignment using graphical processing unit

K Kaur, S Chakraborty, MK Gupta - Journal of Physics …, 2022 - iopscience.iop.org
In bioinformatics, sequence alignment is very important task to compare and find similarity
between biological sequences. Smith Waterman algorithm is most widely used for alignment …

GYAN: Accelerating bioinformatics tools in galaxy with GPU-aware computation mapping

G Gudukbay, JR Gunasekaran, Y Feng… - 2021 IEEE …, 2021 - ieeexplore.ieee.org
Galaxy is an open-source web-based framework that is widely used for performing
computational analyses in diverse application domains, such as genome assembly …

Draft Genome Sequences of Three Isolates of Golubevia sp. Basidiomycete Fungi Isolated from Powdery Mildew Pustules

L Russ, S Warris… - Microbiology …, 2020 - Am Soc Microbiol
The genomes of three Golubevia isolates (BC0812, BC0850, and BC0902) that have been
shown to reduce conidiation of Blumeria graminis f. sp. tritici were sequenced using a dual …