High Performance Compute Clusters: Data, Apps, Results, Sharing and Collaboration
Rudolph Pienaar, PhD
Technical Director
Fetal-Neonatal Neuroimaging and Developmental Science Center
Staff Scientist Instructor in Radiology
Boston Children's Hospital Harvard Medical School
overview of talk
traditional slides...
live interaction
ancilliary projects
overview of talk
overview of talk
Forces acting on healtcare workflows
Forces acting on healtcare workflows
Forces acting on healtcare workflows
Forces acting on healtcare workflows
Forces acting on healtcare workflows
Act | Applies to |
---|---|
HITECH | Health Information Technology for Economic and Clinical Health Act, sets meaningful use of interoperable EHR adoption in the health care system as a critical national goal and incentivized EHR adoption. |
Sarbanes-Oxley | Privacy and integrity of financial data in publicly traded corporations. |
HIPAA | Confidentiality, integrity, and availability of health care information. |
PCI | Confidentiality of credit card information stored and used by merchants. |
GLBA | Confidentiality and integrity of personal financial information stored by financial institutions. |
SB 1386 | Confidentiality of customers' personal information stored by any organization that does business in the state of California. |
BASEL II | Confidentiality and integrity of personal financial information stored by financial institutions. Availability of financial systems. Integrity of financial information as it is transmitted. Authentication and integrity of financial transactions. |
Forces acting on healtcare workflows
Scope | Applies to |
---|---|
IRB | Internal committee formally designated to approve, monitor, and review biomedical and behavioral research involving humans. |
Technology | Extremely static environment, typically on clinical side, with slow updates/changes to computational resources, especially as related to web-based technologies and mobile |
Department | Supplementary technology is often department focused and department centric. |
Patterns of information flow in healthcare
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
Typical hospital "web" apps...
The rise of information silos...
The rise of information silos...
The rise of information silos...
The rise of information silos...
Information explosion...
Information explosion...
Information explosion...
Market | Electronic Laboratory Notebook | Lab Info Management | Image Post-Processing |
---|---|---|---|
Segment Size | $284 million (2017) | $1.5 billion (2015) | $1.3 billion (2014) |
Compound Annual Growth Rate | Unknown | 4.7% | 11.0% |
Key Players | Agilent Technologies Inc., Amphora Research Systems, Accelerys, Waters, Cognium Systems, IDBS, Axiope | Abbot, Perkin, Thermofisher, Labware, Labvantage, Core Informatics | Abbot, Perkin, Thermofisher, Labware, Labvantage, Core Informatics |
Information explosion...
Market | Laboratory Automation | Medical Imaging Data | Genomics Data |
---|---|---|---|
Segment Size | $3.1 billion (2012) | $32.2 billion (2014) | $1.3 billion (2012) |
Compound Annual Growth Rate | 6.4% | 7.0% | 16.3% |
Segment | ELN, LIMS | Post-processing | ELN, LIMS |
Information explosion...
Information explosion...
Information explosion...
Information explosion...
SKA (daily estimated data generation)
1% of the 2010 world's total internet traffic every two days
Information explosion...
Annual global IP traffic will pass the zettabyte (1000 exabytes) threshold by the end of 2016, and will reach 2 zettabytes per year by 2019.
Global IP traffic has increased fivefold over the past five years, and will increase threefold over the next five years.
http://www.cisco.com/c/en/us/solutions/collateral/service-provider/visual-networking-index-vni/VNI_Hyperconnectivity_WP.html
Information explosion...
Two-thirds of all IP traffic will originate with non-PC devices by 2019.
Traffic from wireless and mobile devices will exceed traffic from wired devices by 2016.
http://www.cisco.com/c/en/us/solutions/collateral/service-provider/visual-networking-index-vni/VNI_Hyperconnectivity_WP.html
Information explosion...
Global Internet traffic in 2019 will be equivalent to 66 times the volume of the entire global Internet in 2005.
The number of devices connected to IP networks will be more than three times the global population by 2019
http://www.cisco.com/c/en/us/solutions/collateral/service-provider/visual-networking-index-vni/VNI_Hyperconnectivity_WP.html
Information explosion...
Information explosion...
Information explosion...
Information explosion...
Enter ChRIS...
ChRIS
ChRIS is:
ChRIS
Data collection and management
Data processing and
analysis
Data visualization
Information sharing and collaboration
ChRIS
ChRIS
unmet need...
The Children's Research Information System, ChRIS, is a simple and intuitive Software-as-a-Service platform that allows users to:
unmet need...
making scientific computing more accessible to wider clinical and research communities
unmet need...
making scientific computing more accessible to wider clinical and research communities
value added proposition: research to clinical
Many existing, mature, analysis streams exist primarily in the research domain that can bring considerable value-added information to the clinical workflow
the traditional approach to research pipelines...
what is typical domain knowledge for conducting numerical research?
use the web, Luke...
shifting to the web allows for:
what is ChRIS?
ChRIS is a bio-medical data workflow manage that allows easy and intuitive collection, analysis, and sharing of data between parties.
what is ChRIS?
ChRIS also...
components
collect image data
collect image data
manage image data
analyze image data
analyze image data
view image data
real time collaboration
real time collaboration
real time demo...
real time demo...
Ancilliary projects
Development team
further references...
https://github.com/FNNDSC/chrisreloaded
https://github.com/FNNDSC/ChRIS_API
https://github.com/FNNDSC/viewerjs
https://github.com/FNNDSC/mi2b2
https://github.com/FNNDSC/vjs
https://github.com/slicedrop
https://goxtk.com
thank you...