Advancing Bioinformatics with Modern Hardware, HPC Compute + Software

Bioinformatics is advancing health-care research by using computation to understand biological data. It’s useful for large complex data sets used in determining gene and protein functions, establishing evolutionary relationships, and predicting 3D shapes of proteins. Two experts, Sergio Santander-Jimenez at University of Extremadura, and Ricardo Nobre of INESC-ID, are combining the power of modern hardware […]

Bioinformatics is advancing health-care research by using computation to understand biological data. It’s useful for large complex data sets used in determining gene and protein functions, establishing evolutionary relationships, and predicting 3D shapes of proteins. Two experts, Sergio Santander-Jimenez at University of Extremadura, and Ricardo Nobre of INESC-ID, are combining the power of modern hardware (CPUs+GPUs), HPC compute, and software to advance bioinformatics applications in areas including epistasis detection. Hear how they made it happen: [16:30]

Guests:

Sergio Santander-Jimenez, assistant professor, Dept. of Computer and Communications Technologies, University of Extremadura
Ricardo Nobre, researcher at INESC-ID in Lisbon, Portugal
Sujata Tibrewala, Intel’s oneAPI Developer Community manager

Learn More:

Cross-architecture high-order exhaustive epistasis detection on CPU and GPU devices
Accelerating 3-way Epistasis Detection with CPU+GPU processing. Paper presented in 23rd Workshop on Job Scheduling Strategies for Parallel Processing (JSSPP), New Orleans, 2020. DOI: 10.1007/978-3-030-63171-0_6
GitHub: Epistasis detection using DPC++ on Intel DevCloud source code
Intel DPC++ Compatibility Tool
oneAPI.com
Intel oneAPI Toolkits