Tag: bioinformatics
Distributed GPU simulations revealed new crucial step in AIDS virus maturation
Using computational techniques, researchers have shown how a protein responsible for the maturation of the virus releases itself to initiate infection, This work has been carried out using GPUGRID.net, a voluntary distributed computing platform leveraging GPU accelerators to deliver “virtual supercomputing” performance.
Coupling SIMD and SIMT architectures of phylogeny-aware short-read alignment kernel
Background Aligning short DNA reads to a reference sequence alignment is a prerequisite for detecting their biological origin and analyzing them in a phylogenetic context. With the PaPaRa tool we introduced a dedicated dynamic programming algorithm for simultaneously aligning short reads to reference alignments and corresponding evolutionary reference trees. The algorithm aligns short reads to…
High quality interactive GPU rendering for molecular visualization
IPV is an interactive protein visualizer based on a ray-tracing engine. Targeting high quality images and ease of interaction, IPV uses the latest GPU computing acceleration techniques, combined with natural user interfaces such as Kinect and Wiimotes.
Mendel-GPU: Haplotyping and genotype imputation on Graphics Processing Units
Our GPU software delivers haplotyping and imputation accuracies comparable to competing programs at a fraction of the computational cost and peak memory demand.
High-performance short sequence alignment with GPU acceleration
Authors develop G-Aligner, which adopts the GPU as a hardware accelerator to speed up the sequence alignment process
SOAP3: Ultra-fast GPU-based parallel alignment tool for short reads
SOAP3 is the first short read alignment tool that leverages the multi-processors in a graphic processing unit (GPU) to achieve a drastic improvement in speed
BGI Genomics Institute Announces Cloud-Based DNA Sequencing Service Accelerated by NVIDIA GPU
NVIDIA today announced that BGI, the world’s largest genomics institute, is launching a service that will enable researchers worldwide to perform affordable next-generation sequencing (NGS) bioinformatics analysis in the cloud.
Call For Papers: High Performance Simulation of biological systems
The goal of this track is to explore the use of emerging parallel computing architectures as well as High Performance Computing systems for the simulation of relevant biological systems
EpiGPU: exhaustive pairwise epistasis scans on consumer level graphics cards
The implementation presented uses OpenCL – an open-source library designed to run on any commercially available GPU and on any operating system.
CAMPAIGN: Library of GPU-accelerated data clustering algorithms
CAMPAIGN is a library of data clustering algorithms and tools, written in ‘C for CUDA’ for Nvidia GPUs. The library provides up to two orders of magnitude speed-up over respective CPU-based clustering algorithms and is intended as an open-source resource.
