Bayer Case Study “Scientific Computing”

February 21st, 2017

Bayer Computational Life Science at AWS

Dr. Oliver Fortmeier

Agenda

Bayer

Use Case: Infrastructure for

Genome assembly

Summary

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Bayer Computational Life Science at AWS • AWS Life Science Web Day • 21st February, 2017 • Dr. Fortmeier

The steadily growing and aging

global population has a need for new and

better medicines and for an adequate supply of safe food.

Our innovations offer answers to these challenges. We invent

new molecules which can positively influence the biochemical

processes in living organisms with the goal of improving

the quality of life. That is what our mission

“Bayer: Science For A Better Life”

stands for.

Our MissionBayer: Science For A Better Life


Our Business Areas

• Prescription drugs

Pharmaceuticals Consumer Health Crop Science

• Over-the-counter medicines,dietary supplements,dermatology products,foot care and sunscreen

• Innovative crop protection and seeds

• Animal Health


Our ProductsBayer: Science For A Better Life


Agenda

Bayer


Genome assembly

Summary

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Exemplary Life Science Use Case – Genome Assembly

http://assets.illumina.com/content/

dam/illumina-marketing/images/

techniques/solutions/

complex-disease-inset.jpg


Genome assembly

• Assembly includes compute power (high-performance computing)

• Plant genome assembly may be more complex than human genomes

Whole genome shotgun sequencing

Image partially taken from "Computational Biology Methods and Their Application to the Comparative Genomics of Endocellular Symbiotic Bacteria of Insects." Biol.

Procedures Online (2009). Accessed via SpringerImages.


Secure multi-account

General setup

Data Account

VPC Compute

VPC Provision

Compute Account


virtual High-Performance Computing (vHPC)

Compute Account

Design considerations

• Security

• Clear defined entry and exit points

• No internet access

• Usage of IAM Role for instances

instead of access keys

• Performance

• Placement group

• Sizing of machines

• Usability

• Auto-scaling feature via batch

systemVPC Compute

SG: Login

SG: VPC internal

Endpoint to S3 data

EC2: LoginEC2: compute fleet

Placement group

EC2: file system

SG: Monitor

EC2: Monitor

SG: DataMover

EC2: DataMover

SG: Batch

EC2: Batch

Access to AWS API


Workflow: Provisioning a vHPC

Infrastructure as Code

• Agility and Flexibility

• Quality

• Security

• Immutable infrastructure

Base RHEL/

Centos AMI

Base Bayer

AMI

vHPC AMIs

EC2

instances

vHPC

instances


Agenda

Bayer


Genome assembly

Summary

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Summary

• Infrastructure as Code → flexibility and security

• On-demand scalable → feasibility and performance

• Secure environments → usability for life science

• Stable environment → enterprise ready

• Increased network performance

• Encrypted Elastic File System (EFS)

• AWS API listening on a smaller range of IPs

• Transparency of resources

Take-home messages

Our benefitsOur requests


• Presented use case: Genome Assembly

• Infrastructure for virtual HPCs including security, performance and flexibility

• Automated provisioning of on-demand cloud services yields feasibility for R&D projects

• Innovative projects from R&D requires a high flexibility

• Requirements are not known at the beginning of projects

• Requirements are constantly changing

• Objective: “Compute anywhere”, i.e., bring the code to the data.

Forward-Looking Statements:

This presentation may contain forward-looking statements based on current assumptions and forecasts made

by Bayer Group management. Various known and unknown risks, uncertainties and other factors could lead to

material differences between the actual future results, financial situation, development or performance of the

company and the estimates given here. These factors include those discussed in Bayer’s public reports, which

are available on the Bayer website at www.bayer.com. The company assumes no liability whatsoever to update

these forward-looking statements or to conform them to future events or developments.

Legal Notice:

The product names designated with ™ are brands of the Bayer Group or our distribution partners and are

registered trademarks in many countries.

Disclaimer


http://www.bayer.com/

Thank you for your attention

Bayer Case Study “Scientific Computing”

Health & Medicine

Transcript of Bayer Case Study “Scientific Computing”