New OCF Supercomputer at the University of Aberdeen Supports Ground Breaking Genomics Research

July 7, 2020

July 7, 2020 — Researchers at the University of Aberdeen are benefitting from an investment in High Performance Computing (HPC). The new HPC cluster, called Maxwell, is supporting ground breaking research at the University’s Centre for Genome-Enabled Biology and Medicine (CGEBM) and provides a centralized HPC system for the whole University with applications in medicine, biological sciences, engineering, chemistry, maths and computing science. The new HPC system is designed, integrated and managed by high performance compute, storage, cloud and AI integrator, OCF. The supercomputer is part of the University’s expansion to improve facilities for staff and students.

Image courtesy of the University of Aberdeen

With Maxwell, the University’s CGEBM is able to rapidly analyze complex genomics datasets from known and novel organisms and help researchers to revolutionize the study of the Earth’s biodiversity and complex ecosystems important to health and disease, agriculture or the environment. It is estimated that only around 1 percent of the Earth’s biodiversity is easily culturable in a laboratory, and there is little knowledge on most living organisms on the planet.

With the use of HPC, University researchers can analyze microbiomes associated with a diverse array of ecosystems, such as the human gut, fish important to Scottish aquaculture, glaciers, deep-sea sediments, soil and bioreactors for the production of sustainable and environmentally friendly biofuels. These state-of-the-art studies provide new understanding of important and diverse biological processes such as antimicrobial drug resistance; pathogen detection, evolution and virulence; mechanisms of drug efficacy and toxicity; development; inflammation; tumorigenesis; nutrition and satiety; and degradation of hydrocarbons.

Scotia Biologics, a SME research company, is working with the University’s CGEBM, using Maxwell’s capacity to speed up its existing pipeline and generating a more comprehensive dataset using genomics compared to traditional methods typically used in its field.

The new HPC system is also being used to teach graduates and post-graduate students in specialist subjects such as AI and bioinformatics, fields important to modern research and STEM careers, providing them with a unique opportunity to access HPC capacity. With 300 users, the cluster is providing a centralized HPC system to support all researchers and post-graduate students across the University.

With twenty times more storage than the University’s previous HPC system, Maxwell comprises four Lenovo ThinkSystem SD530 servers, 40 compute nodes, ThinkParkQ supported BeeGFS Parallel FileSystem hosted on Lenovo Servers and Storage and NVIDIA GPUs. OCF is also providing an OpenSource Software Stack and its OCF Remote HPC Admin Managed Service to support the in-house HPC team.

Image courtesy of the University of Aberdeen

Dean Phillips, Assistant Director, Digital and Information Services of the University of Aberdeen says: “Aberdeen is a research-intensive university and we’ve already seen an increase of 50 percent in registered users of our Maxwell HPC cluster. Having our own HPC system helps the University to attract new researchers, research funding and expand on existing programs of research and teaching. It is highly beneficial for our researchers to have on-site access to HPC infrastructure, particularly when securing start-up funds.”

Phillips continues: “OCF’s Remote Admin Service is an extension of our team and really helps to ensure the smooth day to day running of our HPC cluster and dealing with support issues, user requests and keeping on top of software and security updates.”

Dr Elaina Collie-Duguid, Manager, Centre for Genome Enabled Biology & Medicine at the University of Aberdeen says: “Genomics is a dynamic discipline that rapidly evolves into new applications and approaches to interrogate complex systems. The new HPC cluster, with its expanded capacity and advanced GPU capabilities, enables us to use new analysis methods and work at a much quicker rate than before. It really is an exciting time for genomics, which is revolutionizing the study of organisms and complex ecosystems to address issues of global importance, and HPC is a critical tool for analysis of these data.”

Russell Slack, Managing Director of OCF comments: “The new HPC cluster helps the University remain ahead of a fiercely competitive market. It attracts researchers, students and grants to its facility. Aberdeen’s investment in its HPC is a credit to its foresight in the importance of HPC in research that impacts people and everyday lives.”

Keith Charlton, CEO of Scotia Biologics, says, “As part of our drive to introduce new services to offer to the life sciences sector, Scotia is developing phage display library capabilities based around a growing number of animal species. With access to Maxwell, we’ve been able to quickly generate a large volume of data relatively inexpensively whilst significantly advancing our R&D program.”


Source: University of Aberdeen

Subscribe to HPCwire's Weekly Update!

Be the most informed person in the room! Stay ahead of the tech trends with industy updates delivered to you every week!

Nvidia Aims Clara Healthcare at Drug Discovery, Imaging via DGX

April 12, 2021

Nvidia Corp. continues to expand its Clara healthcare platform with the addition of computational drug discovery and medical imaging tools based on its DGX A100 platform, related InfiniBand networking and its AGX develop Read more…

Nvidia Serves Up Its First Arm Datacenter CPU ‘Grace’ During Kitchen Keynote

April 12, 2021

Today at Nvidia’s annual spring GPU technology conference, held virtually once more due to the ongoing pandemic, the company announced its first ever Arm-based CPU, called Grace in honor of the famous American programmer Grace Hopper. Read more…

Nvidia Debuts BlueField-3 – Its Next DPU with Big Plans for an Expanded Role

April 12, 2021

Nvidia today announced its next generation data processing unit (DPU) – BlueField-3 – adding more substance to its evolving concept of the DPU as a full-fledged partner to CPUs and GPUs in delivering advanced computi Read more…

Nvidia’s Newly DPU-Enabled SuperPOD Is a Multi-Tenant, Cloud-Native Supercomputer

April 12, 2021

At GTC 2021, Nvidia has announced an upgraded iteration of its DGX SuperPods, calling the new offering “the first cloud-native, multi-tenant supercomputer.” The newly announced SuperPods come just two years after the Read more…

Tune in to Watch Nvidia’s GTC21 Keynote with Jensen Huang – Recording Now Available

April 12, 2021

Join HPCwire right here on Monday, April 12, at 8:30 am PT to see the Nvidia GTC21 keynote from Nvidia’s CEO, Jensen Huang, livestreamed in its entirety. Hosted by HPCwire, you can click to join the Huang keynote on our livestream to hear Nvidia’s expected news and... Read more…

AWS Solution Channel

Volkswagen Passenger Cars Uses NICE DCV for High-Performance 3D Remote Visualization

 

Volkswagen Passenger Cars has been one of the world’s largest car manufacturers for over 70 years. The company delivers more than 6 million automobiles to global customers every year, from 50 production locations on five continents. Read more…

The US Places Seven Additional Chinese Supercomputing Entities on Blacklist

April 8, 2021

As tensions between the U.S. and China continue to simmer, the U.S. government today added seven Chinese supercomputing entities to an economic blacklist. The U.S. Entity List bars U.S. firms from supplying key technolog Read more…

Nvidia Serves Up Its First Arm Datacenter CPU ‘Grace’ During Kitchen Keynote

April 12, 2021

Today at Nvidia’s annual spring GPU technology conference, held virtually once more due to the ongoing pandemic, the company announced its first ever Arm-based CPU, called Grace in honor of the famous American programmer Grace Hopper. Read more…

Nvidia Debuts BlueField-3 – Its Next DPU with Big Plans for an Expanded Role

April 12, 2021

Nvidia today announced its next generation data processing unit (DPU) – BlueField-3 – adding more substance to its evolving concept of the DPU as a full-fle Read more…

Nvidia’s Newly DPU-Enabled SuperPOD Is a Multi-Tenant, Cloud-Native Supercomputer

April 12, 2021

At GTC 2021, Nvidia has announced an upgraded iteration of its DGX SuperPods, calling the new offering “the first cloud-native, multi-tenant supercomputer.” Read more…

Tune in to Watch Nvidia’s GTC21 Keynote with Jensen Huang – Recording Now Available

April 12, 2021

Join HPCwire right here on Monday, April 12, at 8:30 am PT to see the Nvidia GTC21 keynote from Nvidia’s CEO, Jensen Huang, livestreamed in its entirety. Hosted by HPCwire, you can click to join the Huang keynote on our livestream to hear Nvidia’s expected news and... Read more…

The US Places Seven Additional Chinese Supercomputing Entities on Blacklist

April 8, 2021

As tensions between the U.S. and China continue to simmer, the U.S. government today added seven Chinese supercomputing entities to an economic blacklist. The U Read more…

Habana’s AI Silicon Comes to San Diego Supercomputer Center

April 8, 2021

Habana Labs, an Intel-owned AI company, has partnered with server maker Supermicro to provide high-performance, high-efficiency AI computing in the form of new Read more…

Intel Partners Debut Latest Servers Based on the New Intel Gen 3 ‘Ice Lake’ Xeons

April 7, 2021

Fresh from Intel’s launch of the company’s latest third-generation Xeon Scalable “Ice Lake” processors on April 6 (Tuesday), Intel server partners Cisco, Dell EMC, HPE and Lenovo simultaneously unveiled their first server models built around the latest chips. And though arch-rival AMD may... Read more…

Intel Launches 10nm ‘Ice Lake’ Datacenter CPU with Up to 40 Cores

April 6, 2021

The wait is over. Today Intel officially launched its 10nm datacenter CPU, the third-generation Intel Xeon Scalable processor, codenamed Ice Lake. With up to 40 Read more…

Julia Update: Adoption Keeps Climbing; Is It a Python Challenger?

January 13, 2021

The rapid adoption of Julia, the open source, high level programing language with roots at MIT, shows no sign of slowing according to data from Julialang.org. I Read more…

Intel Launches 10nm ‘Ice Lake’ Datacenter CPU with Up to 40 Cores

April 6, 2021

The wait is over. Today Intel officially launched its 10nm datacenter CPU, the third-generation Intel Xeon Scalable processor, codenamed Ice Lake. With up to 40 Read more…

CERN Is Betting Big on Exascale

April 1, 2021

The European Organization for Nuclear Research (CERN) involves 23 countries, 15,000 researchers, billions of dollars a year, and the biggest machine in the worl Read more…

Programming the Soon-to-Be World’s Fastest Supercomputer, Frontier

January 5, 2021

What’s it like designing an app for the world’s fastest supercomputer, set to come online in the United States in 2021? The University of Delaware’s Sunita Chandrasekaran is leading an elite international team in just that task. Chandrasekaran, assistant professor of computer and information sciences, recently was named... Read more…

HPE Launches Storage Line Loaded with IBM’s Spectrum Scale File System

April 6, 2021

HPE today launched a new family of storage solutions bundled with IBM’s Spectrum Scale Erasure Code Edition parallel file system (description below) and featu Read more…

10nm, 7nm, 5nm…. Should the Chip Nanometer Metric Be Replaced?

June 1, 2020

The biggest cool factor in server chips is the nanometer. AMD beating Intel to a CPU built on a 7nm process node* – with 5nm and 3nm on the way – has been i Read more…

Saudi Aramco Unveils Dammam 7, Its New Top Ten Supercomputer

January 21, 2021

By revenue, oil and gas giant Saudi Aramco is one of the largest companies in the world, and it has historically employed commensurate amounts of supercomputing Read more…

Quantum Computer Start-up IonQ Plans IPO via SPAC

March 8, 2021

IonQ, a Maryland-based quantum computing start-up working with ion trap technology, plans to go public via a Special Purpose Acquisition Company (SPAC) merger a Read more…

Leading Solution Providers

Contributors

Can Deep Learning Replace Numerical Weather Prediction?

March 3, 2021

Numerical weather prediction (NWP) is a mainstay of supercomputing. Some of the first applications of the first supercomputers dealt with climate modeling, and Read more…

Livermore’s El Capitan Supercomputer to Debut HPE ‘Rabbit’ Near Node Local Storage

February 18, 2021

A near node local storage innovation called Rabbit factored heavily into Lawrence Livermore National Laboratory’s decision to select Cray’s proposal for its CORAL-2 machine, the lab’s first exascale-class supercomputer, El Capitan. Details of this new storage technology were revealed... Read more…

New Deep Learning Algorithm Solves Rubik’s Cube

July 25, 2018

Solving (and attempting to solve) Rubik’s Cube has delighted millions of puzzle lovers since 1974 when the cube was invented by Hungarian sculptor and archite Read more…

African Supercomputing Center Inaugurates ‘Toubkal,’ Most Powerful Supercomputer on the Continent

February 25, 2021

Historically, Africa hasn’t exactly been synonymous with supercomputing. There are only a handful of supercomputers on the continent, with few ranking on the Read more…

The History of Supercomputing vs. COVID-19

March 9, 2021

The COVID-19 pandemic poses a greater challenge to the high-performance computing community than any before. HPCwire's coverage of the supercomputing response t Read more…

HPE Names Justin Hotard New HPC Chief as Pete Ungaro Departs

March 2, 2021

HPE CEO Antonio Neri announced today (March 2, 2021) the appointment of Justin Hotard as general manager of HPC, mission critical solutions and labs, effective Read more…

AMD Launches Epyc ‘Milan’ with 19 SKUs for HPC, Enterprise and Hyperscale

March 15, 2021

At a virtual launch event held today (Monday), AMD revealed its third-generation Epyc “Milan” CPU lineup: a set of 19 SKUs -- including the flagship 64-core, 280-watt 7763 part --  aimed at HPC, enterprise and cloud workloads. Notably, the third-gen Epyc Milan chips achieve 19 percent... Read more…

Microsoft, HPE Bringing AI, Edge, Cloud to Earth Orbit in Preparation for Mars Missions

February 12, 2021

The International Space Station will soon get a delivery of powerful AI, edge and cloud computing tools from HPE and Microsoft Azure to expand technology experi Read more…

  • arrow
  • Click Here for More Headlines
  • arrow
HPCwire