Describes strategies for submission of clinical trial data to the NIAID Immunology Database and Analysis Portal in order to advance discoverability, comparability and analysis

1. ImmPort: Strategies to Enhance
Discoverability of Clinical Trial Data
Barry Smith
http://ontology.buffalo.edu/smith
https://immport.niaid.nih.gov
1

2. pipeline
2

3. BISC pipeline
PIs, hospitals, biostatisticians
…
3

4. BISC pipeline
PIs, hospitals, biostatisticians
…
4
Northrop
Grumman

5. BISC pipeline
PIs, hospitals, biostatisticians
…
5
Northrop
Grumman
Max &
Mindy

6. BISC pipeline
perform
study &
collect
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
aggregate,
analyze,
data in
ImmPort

7. pipeline is siloed by heterogeneous
terminologies and standards
perform
study &
collect
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
aggregate,
analyze,
data in
ImmPort

8. siloes break discovery, comparability
and analysis
perform
study &
collect
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
compare,
analyze,
data in
ImmPort

9. 9

10. 10
76 results;
0 results for
ImmPort

11. how break down terminology-created
silo walls?
perform
study &
collect
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
aggregate,
analyze,
data in
ImmPort
standards and software
CDISC, SDTM
EHRs, ELNs, CTMSs
standards and software
ImmPort templates
MYSQL …
11

12. Immune-Related Ontologies (examples)
Protein Ontology (PRO)
Gene Ontology (GO)
Cell Ontology (CL)
Immune Epitope Ontology
Beta Cell Genomics Ontology
Infectious Disease Ontology
Allergy Ontology
Antibody Ontology
CDISC2RDF
CL+ (for CyTOF)
Cytokine Ontology
Immunology Ontology
VDJ Ontology
http://ncorwiki.buffalo.edu/index.php/Immunology_Ontologies
12

13. these ontologies are already being
used by Max and Mindy
perform
study &
compile
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
aggregate,
analyze,
data in
ImmPort
standards and software
CDISC, SDTM
EHRs, ELNs, CTMSs
standards and software
ImmPort templates
html, SQL ..
immune-
related
ontologies
GO, PRO, CL,
…

14. pipeline
perform
study &
compile
data
analyze
data
(SAS …)
submit
data to
ImmPort
process &
de-identify,
data in
ImmPort
discover,
aggregate,
analyze,
data in
ImmPort
standards and software
ImmPort templates
html, SQL ..
immune-related ontologies
GO, PRO, CL, … CDISC2RTF
standards and software
CDISC, SDTM
EHRs, ELNs, CTMSs
14

15. strategies
• FDA-CDISC-CDISC2RDF
• LabKey / Electronic Lab Notebook strategy
• training submitters and users
15

16. Rho strategy
PIs, hospitals, contract
research organizations (CROs):
Rho Federal Systems Division
Northrop
Grumman
Max,
Mindy
16

17. ImmPort: Training and Strategy Meeting
Rho Federal Systems Division, Chapel Hill, Oct. 9-10
– to provide assistance to actual and potential submitters of data
to ImmPort
– to enable interaction between submitters and those charged
with managing ImmPort
– to improve discoverability and usability of data from ImmPort
Speakers
Ashley Xia (NIAID)
Barry Smith (Buffalo / BISC)
Jeff Wiser (NG / BISC)
David Iklé, John Lim, Karen Kesler (Rho)
http://ncorwiki.buffalo.edu/index.php/ImmPort 17

18. one idea: an ontologically informed
CTMS incrementally removing silos
through the entire ImmPort pipeline
PIs, hospitals, CROs:
Rho Federal Systems Division
Northrop
Grumman
Max,
Mindy
18

19. not only would this make life easier for
all the participants listed here:
PIs, hospitals, CROs:
Rho Federal Systems Division
Northrop
Grumman
Max,
Mindy,
Atul …
19

20. it would also make ImmPort data
discoverable by external researchers
PIs,
hospitals,
CROs
Northrop
Grumman
de-identified
patient data
20