big data visualizationbigdata.citytech.cuny.edu/bd_media/2018/06/bbd-week-2018...biomedical big data...
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Alexandros Sigaras | @AlexSigarasResearch Associate in Computational BiomedicineWeill Cornell Medicine
Sophia Roshal | @RoshalSophiaSoftware Engineer InternWeill Cornell Medicine
Biomedical Big Data Week We’ll Cornell Medicine
6.20.2018
Big Data VisualizationMixed Reality, Virtual Reality & Augmented Reality
Source: EMC & IDC“The Digital Universe. Driving Data Growth in Healthcare”
https://www.emc.com/analyst-report/digital-universe-healthcare-vertical-report-ar.pdf
Healthcare & Big DataToday
Healthcare & Big Data2025 Predictions
Astronomy Twitter Youtube Genomics
Acquisition 25zetta-bytes/year
0.5–15billion
tweets/year
500–900 million
hours/year
1zetta-
bases/year
Storage 1EB/year
1–17PB/year
1–2EB/year
2–40EB/year
Source: NIH“Big Data: Astronomical or Genomical Zachary Stephens et al.”
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4494865/
Source: NIHhttps://www.genome.gov/sequencingcosts/
Cost per Genome
“My hope is that this becomes the foundation,the architecture,
whereby in 10 years fromnow we can look back
and say that we haverevolutionized
medicine.”
Precision Medicine InitiativeBudget
$130MF Y 1 6 E N A C T E D F Y 1 7 P R E S I D E N T ’ S
R E Q U E S T
$230M
Precision Medicine InitiativeRegional Medical Centers across USA
• Able to enroll diverse patient populations
• Strong electronic health record capacity
• Geographic spread
• Capacity to enroll 35,000 a year
Northwestern UniversityInstitute for Public Health and MedicineEvanston, IL
Universityof PittsburghClinical and Translational
Science Institute
Pittsburgh, PA
Universityof ArizonaCollege of Medicine
& Public Health
Tucson, AZ
Columbia/Cornell/NYP/Harlem HospitalInstitute for Genomic
Medicine
New York, NY
Universityof CaliforniaSan DiegoDepartment of Biomedical InformaticsLa Jolla, CA
Massachusetts General HospitalGenetics & Genomics Unit
Boston, MA
Henry FordHealth SystemPublic Health Sciences
Detroit, MI
GeisingerHealth SystemGenomic Medicine Institute
Danville, PA
Precision Medicine InitiativeNYC
Cancer MoonshotState of the Union | January 2016
21st Century Cures Act SignedDecember 13th 2016
https://www.whitehouse.gov/CancerMoonshot
Mission
Weill Cornell MedicineMission
Care
TeachDiscover
The New style of tailored treatment
http://meyercancer.weill.cornell.edu/news/2015-01-22/new-style-tailored-treatment
Irene Price | 76y Female
• 2009 | Diagnosed with Bladder Cancer; initially followed traditional treatment showing signs of success
• Relapse | High-grade urothelial carcinoma in bladder and several lymph nodes
• Cystectomy (Bladder removal), sample sent for Genetic Analysis (WES)
• Underwent Radiation Therapy, Genetic Analysis Results showed HER2 Amplification (mutation common in breast cancer)
• Relapse | Signs of metastasis to the liver• Chemotherapy targeted treatment | 8 cycles with
Taxol and Herceptin• Disease free since Nov 2014
Medical History
NGS Test Workflow
15
Orders Test Receives Report
Patient
Referring Physician
2000 Cores2PB Storage
Institute for Computational Biomedicine
Today
*source: ipm-cbio.med.cornell.edu
https://youtu.be/_Fly4U9eFRY
*credits: Lucas Films
Star WarsEpisode V – The Empire Strikes Back (1980)
*credits: Microsoft Researchhttps://www.microsoft.com/en-us/research/project/holoportation-3/
Video: https://youtu.be/7d59O6cfaM0
Microsoft HololensHoloportation
*credits: Case Western Reserve University
Microsoft HololensHealthcare
*credits: Case Western Reserve University
Microsoft HololensHealthcare
Reality-VirtualityContinuum
Milgram, Paul; H. Takemura; A. Utsumi; F. Kishino (1994). "Augmented Reality: A class of displays on the reality-virtuality continuum"
PhysicalReality (PR)
VirtualReality (VR)
AugmentedReality (AR)
AugmentedVirtuality (AV)
Mixed Reality (MR)
Gaze VoiceGesture
Ways to Interact
Visualizing Protein Structures
Visualizing Networks
Source: http://www.creativeapplications.net/linux/gephi-mac-windows-linux/
Visualizing Cancer Drug Networks
Data: Kaitlyn Gayvert
Bringing Networksinto Reality
https://youtu.be/Yu3Vxy6lQwg
Tumor BoardUsing Hololens across the world
https://youtu.be/O99CMi2ahD0
Demos
Minority Report
Release Date: June 21 2002
John Underkoffler
https://www.ted.com/talks/john_underkoffler_drive_3d_data_with_a_gesture
HealthcareLooking into the future
https://youtu.be/ZhAzqaV-lQk
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eipm.weill.cornell.edu