Introduction to Sitlab MedTech

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Who we are

Today’s presenters are:

Leon Mutambala
CEO
Sitlab MedTech

Jasim Abassi
Lead Developer
Sitlab MedTech

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Who we are

Sitlab Technology’s MedTech platform provides secondary analysis of whole genome Sequencing / DNA using data-
driven computational (AI/ML) pipelines based on hardware acceleration and utilising scalable Cloud storage and
computation fabric.
High power computing and advanced data science technologies help propel genomics forward and deliver on its clinical
promise, enhancing customer capabilities to analyse and interpret the data produced by the sequencing systems.
Using Artificial Intelligence reduces clinical trial cycle times while improving the costs of productivity and accelerates
outcomes of clinical development.

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Introduction - Cooperation with

• Sitlab is proud to be part of the Uppsala Innovation Centre Business Start-up Programme which helped our team to further develop our
innovative business idea and verify that it has the potential to succeed.
• During the last three months we were able to make good connections and collaborate with other participants, mentors and investors, providing
us valuable feedback on our innovation.
• This has helped us to further develop our system for secondary analysis of whole genome Sequencing / DNA using data-driven computational
(AI/ML) pipelines based on hardware acceleration and utilising scalable Cloud computation fabric.
• This enhances customer capabilities to analyse and interpret the data produced by the sequencing systems.
• We believe we can merge high power computing and advanced data science technologies to help propel genomics forward and deliver on its
clinical promise.
• We believe that artificial intelligence can reduce clinical trial cycle times while improving the costs of productivity and outcomes of clinical
development.
• Predictive AI models and analytics tools can accelerate the understanding of diseases, identify suitable patients and key investigators to inform
site selection, and support novel clinical study designs.
• AI algorithms, combined with an effective digital infrastructure, could enable the continuous stream of clinical trial data to be cleaned,
aggregated, coded, stored and managed.

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Problem

• Analysing medical research data is a vast computational exercise

• Industry in infancy – we are just at the beginning of the road
• It is Time consuming
• Acquisition, storage, distribution, and analysis of large datasets is complex
• One stop solution for problem not available
• Technical teams with required skills are not readily available
• Data security could be a problem if processing across many data sources and systems
• Infrastructure cost and maintenance is very high
• Making multiple software products to work seamlessly is complex
• Availability of on-premise high-performance computing is scarce

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Our Solution

• We are “putting everything in one place” and create integrated workflows

• Whole genome Sequencing/ DNA
• Using Data-driven computational (AI/ML) pipelines
• Hardware acceleration
• Cloud, co-location and on-premise hybrid deployment
• The system takes advantage of elastic scaling of compute clusters using AWS Elastic Compute
• Enhance customer capabilities to analyse and interpret the data produced by the sequencing
systems
• We believe we can merge high power computing and advanced data science
• Technologies to help propel genomics forward and deliver on its clinical promise

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Unique Value Proposition

• Vast on-demand parallel computing using AI/ML

• AI fuelled storage and backup for Genomic data
• Clinical Trial Management and Monitoring
• 30-50 times faster secondary analysis of sequencer generated FASTQ files to variant call files
(VCFs)
• Current analysis takes nearly 30 hours of computation on a 32-vCPU machine - we accelerate
this to finish in 45 minutes on an 8 GPU machine – a 97% reduction
• Our Cloud, on premise and co-location capability will lower the cost of storing, sharing and
managing the enormous volumes of genomic data
• Scalability and redundancy through micro service architecture

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Unique Selling Points

• Secondary analysis pipeline using FPGA

• De-noising of MRI images
• Data Visualizations and Analytics
• Software-As-A-Service delivery model so that researchers can access sophisticated analysis
functionality without requiring any software to be installed locally
• Combining software and hardware products provides a scalable, efficient, and extensible
genomic analysis solutions for both clinical and translational research use cases
• Power and capability to streamline workflow configuration and optimize costs via data
lifecycle management tools

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Customer Segments

• Bio-informatics research centres

• Research and Development Labs
• Cancer Research Labs
• Covid19 Research Labs
• Medical imaging Research Labs
• Genomic Research Labs

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Early Adopters

• Researchers
• Uppsala University
• SLU University
• Karolinska Institutet
• Lund Universitet
• Scilifelab
• Uppsala Business Park
• Umea University

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Cost Structure

• Datacentre Infrastructure costs (servers, networking)

• Cloud Infrastructure costs (virtual servers)
• Software licence costs (combing 10+ different software components in one integrated system)
• Development tools costs
• Development and implementation team costs
• Maintenance and support costs
• Marketing costs

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Revenue Streams

• Tiered service monthly subscription-based model on shared infrastructure

• Plus consumption based hourly charges
• Buy or Lease options

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Marketing Channels

• MedTech groups on social media such as LinkedIn, twitter, Facebook, Instagram, research gate
etc
• MedTech exhibitions and conferences
• Direct contacts at Research Centres and Universities
• Innovation Workshops

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Next Generation MedTech Platform: High Level Overview

On-premise
AWS Cloud/Outpost
AWS Direct Connect
Cloud Engine Command Line
Master

Genomics Workbench
Job Instances
VPN Qumulo
File System
Datacenter
Qumulo
Replication
AWS S3
Long term
Genomics Qumulo archive
Servers (GxS) File System
Data Analytics in the Cloud (AWS)
Build and deploy custom workflows on the fly Reusable workflows and reference data
Push local data to the cloud Store data, results, report on Amazon S3
Pull result and report down Dynamically scales on demand
Web portal for monitoring cloud process Secure and reliable platform

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 text
text
Cloud Computing Pipeline: Qumulo hybrid cloud file system

Datacenter VPC

Amazon
Computer Farm Database and Machine
Repository Spot Fleet GPU
Image
AWS Direct
Connect

FPGA
Data ingest
Qumulo Qumulo
replication Qumulo Shift to S3 AWS S3
Qumulo Long term archive
File System File System

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 text
text
Use case: Predictive modeling of clinical trial using Artificial Intelligence

Ingest Model Enhance Transform Deliver

Lambda Historic request

Lambda Kinesis Lambda Kinesis Lambda Kinesis Feature API Gateway

engineered
data

Lambda Transformed Lambda

Firehose Firehose data
Lambda
SageMaker
Lambda
endpoint

Amazon Modeled Enhanced

Serialised
EC2 data data
model
Training Forecast request
cluster

Lambda API Gateway

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Next Generation MedTech Platform

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Next Generation MedTech Platform: What we do

Sitlab provides cloud and on-premise/datacenter based

genomic data analysis and storage infrastructure

Our genomic data analysis pipelines are

• Illumina Dragen BIO-IT platform (FPGA based)
• Parabricks (GPU based)
• Qiagen
• Burrows-Wheeler Aligner (BWA)
• Qumulo hybrid cloud file system

The applications of these pipelines are in

• Whole genome Sequencing/ DNA
• Exome sequencing /Exonic coding regions
• RNA-Sequencing /RNA
• Methylome Sequencing /methylation
• Cancer / somatic mutations

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 text
Creating a global MedTech network

Sitlab is planning to create a global network for its MedTech platform across the major
AWS regions North America (Northern Virginia), South America (Sao Paulo), Europe
(Dublin) / Middle East (Bahrein) / Africa (cape Town) and Asia Pacific (Mumbai, Hong
Kong, Tokyo and Sydney). Each AWS region is fully isolated from each other.
The main benefit to set up a global network is to overcome regulatory constraints in each
region that interpret the use of AI differently.
Protection and Ownership of Data: Some countries to not permit the processing of
sensitive data outside the region.
Ireland
Copyrights, Patents and Trade Secrets of AI Algorithms: Jurisdictions treat differently to
legally protect ownership rights related to AI algorithms. Tokyo
Regulations/government interventions: Legislation relating to consumer protection, Northern Virginia
privacy and product safety is applicable to AI systems even if they are not expressively Bahrain Hong Kong
mentioned in the legislation and this may lead to inappropriate outcomes as the Mumbai
legislation is not necessarily aimed to be applied to new technologies as AI.
Civil Liability: AI systems do not have legal capacity and cannot be held liable for
damages. This needs to be addressed by each jurisdiction. Sao Paulo
Discrimination and Bias: AI systems will learn from data input it gets. If the data is biased Cape Town Sydney
or discriminatory in any way, so will be the AI system. Discrimination laws are differently
applied and, in most cases, inadequate for the future.

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Contact text

Sitlab MedTech
leonm@sitlab.se
jasim@sitlab.se

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