Big Data and Data Analysis for Personalized Medicinelsi-dev.sites.olt.ubc.ca/files/2015/07/PMI-Summit... · Ambassador Big Data and Data Analysis for Personalized Medicine Dr. Paul

Ambassador

Big Data and Data Analysis for Personalized Medicine

Dr. Paul Terry

Copyright © 2015 PHEMI. All rights reserved.

Agenda •  Information and Data

•  The Technology

•  The Promise

•  Personalized Medicine

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Copyright © 2015 PHEMI. All rights reserved. 3

CEO/CTO of PHEMI Board of Life Sciences BC Board of Providence Health Care Board of Molecular You Adjunct Professor Big Data SFU


1990

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San Francisco 49’ers Super Bowl XXIV

Edmonton Oilers – Stanley Cup Champions

West Germany won the World Cup

George W Bush – Time Person of the Year

1. Cheers (NBC) 2. 60 Minutes (CBS) 3. Roseanne (ABC) 4. A Different World (NBC) 5. The Cosby Show (NBC) 6. Murphy Brown (CBS) 7. Empty Nest (NBC) 8. America's Funniest Home Videos (ABC) 9. The Golden Girls (NBC) 10. Designing Women (CBS)

World Wide Web/Internet protocol (HTTP) and WWW language (HTML) created by Tim Berners-Lee.



BD2K

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“Big Data to Knowledge”

$32M grants 2014, $656M over next 7 Years

NIH Initiative (http://bd2k.nih.gov)


311M UKP (524M USD) UK 100k Genomics Project (delivery 2017)


Information & Data

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Information & Data

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Information & Data

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Information & Data

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Information & Data

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The Technology

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Big Data

Big Data is a ‘Shoe Box’ of everything

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Big Data

Big Data is a ‘small supercomputer’

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Big Data

June 2013

Published 100M per second

With a massive (scalable) ingest rate capability

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Big Data ... at a commodity price

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Big Data ... at a commodity price

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Big Data ... for thought

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Governance Privacy Security

Google (+) for Medicine

Internet

Parse & Index Engines

Big Data Repository

Silo’d Assets

Parse & Index Engines

Data Sharing Agreements

PHEMI Central Priv

acy

by

Des

ign

Big Data Repository

Search Maps News Custom

Applications Self-Serve Analytics Dashboards

Genomics

Image

Device

Labs

Meds

EMR

Ambassador

Analytics-Ready Digital Assets

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Information Storage

Gene Seq

xray

EMR Form

Consent Letter

Code Fragment

Database row,cell or entire

Webpage

Documents

Virtual machine

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(Late) Data Modelling

Dat

a Fe

eds

Big Data �

Gather Store Calculate Discovery /Report

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Digital Library of Assets

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Your Research Library = Big Data

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A Digital Asset

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Digital Object= Raw+ Metadata

•  Timestamp of when it was imported •  Location/Source imported from •  Retention policy •  Classification •  Data type of asset •  Version control information •  Data agreements for the asset •  Backup information •  Etc.


Digital Library

With a ‘small supercomputer’ acting as Librarian

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The Promise

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The Promise of Big Data

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Schemaless

Fast On-Boarding

Any Data Type

Single Point of Access

Economics at Scale

50% Lower TCO

D a t a L a k e


Ferrari search

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Data à Information à Knowledge

Visualization à Storytelling


OLTP


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Star

Snowflake

OLAP


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Data Science

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Information & Data

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Taking Big Data Beyond the Data Lake

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Cataloging

Inventory of Digital Assets Keyword, Graph, Geospatial

Continuously add structure to data

Cleanse, Structure, Ontology Data Processing Functions

Privacy, Security, & Governance

Zero Trust Data


The Promise of Big Data for Personalized Medicine

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Blue Button


Use Cases

Wellness Autism Self-Serve Data


•  Link datasets •  Privacy, security, governance, data

sharing agreements, consent management.

•  Replace existing NAS, Spreadsheet, database

BioInformatics Tools Analytics Research

Portal Family Portal

Proprietary & 3rd party libraries

Forms JSON

Images JPG, DICOM

Metabolome CSV, PDF

Expression Array CSV

Microbiome CSV

Microarray Excel

WES & WGS FASTQ, VCF

Physical, birth & medical history

Excel -> EMR

Proprietary Database SQL

Autism: Diagnose & Treat Diseases Earlier


Wellness

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Clinical Chemistry

VCFs & Results

Proteome

Metabolome Microbiome Lab Reports

•  Regular molecular screening

•  Early detection •  Prevent, delay,

mitigate •  Rich research

PHEMI Central Big Data Warehouse

Ambassador


Self Serve Portal – Information on Demand

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What’s the relationship between gene variants & meds for patients with AMI and LVEF<40?

Self Serve Portal

31#

AMI Patients

Cardiac Outcomes

PHEMI Central Big Data Warehouse Ambassador

Ambassador

PHEMI

Dr. Paul Terry ([email protected])