Bioinformatics with HPC MidlandsMartin Hamilton, Centre Manager

1. The Landscape

2. HPC Midlands

3. What’s in Scope?

4. Next Steps

Themes

1. The Landscape

2. HPC Midlands

3. What’s in Scope?

4. Next Steps

Themes

The Landscape

The Landscape

The Landscape

1. The Landscape

2. HPC Midlands

3. What’s in Scope?

4. Next Steps

Themes

HPC Midlands– hpc-midlands.ac.uk

– Centre of Excellence in High

Performance Computing• £1m seed funding from EPSRC/BIS

– Remit is to make

Supercomputing Accessible to

Industry• Working with startups and leading

firms such as Airbus, E.ON, Rolls-

Royce, RWE npower and Tata Steel

• Flexible licensing from ISVs

including ANSYS, CD-adapco and

MSC Software

HPC Midlands

HPC Midlands

HPC Midlands

3,000 cores (48 Teraflops)11 chassis (18 blades each)15TB RAM120TB Lustre storageNon-blocking QDR Infiniband188 compute node blades:

2 x 2.0GHz (8 core) Sandy Bridge 140 with 64GB RAM (4GB/core)48 with 128GB RAM (8GB/core)

HPC Midlands

HPC Midlands

1. The Landscape

2. HPC Midlands

3. What’s in Scope?

4. Next Steps

Themes

What’s in Scope?– Bias towards industrially

linked R&D work

– Majority of use to date has

been science and

engineering

– Interest from biotech

sector

– Links to big pharma and

startups/spinouts

1. The Landscape

2. HPC Midlands

3. What’s in Scope?

4. Next Steps

Themes

Next Steps

– Use cases• “Conventional” MPI codes

and off-the-shelf parallel

apps

• High Throughput Computing /

embarassingly parallel codes

– Bioinformatics applications• BLAST/CS-BLAST/CSI-BLAST,

Bowtie, Cufflinks, FASTA,

GATK, …

• HPC plugin for i2b2?

Next Steps

Next Steps

– Collaborators sought!

– Local or remote i2b2

database?• NHS infosec requirements

• Redaction/anonymization/

consent

– Combining sources, e.g.

Mosaic• Machine Learning

• Big Innovation Centre: “Data

Switzerland” etc

– New or existing project?

Next Steps

Bioinformatics with HPC MidlandsMartin Hamilton, Centre Manager