from the icapturer to mcmanus-informaticus

From the iCAPTURer to McManus-Informaticus

Benjamin Good

Wilkinson Laboratory

iCAPTURE Centre, UBC

A Brief History of Ben

• 1998 BS, UC San Diego, – Cognitive Science

• 1999 “Knowledge Engineer”, SAIC• 2000 MSc Sussex Uni., UK,

– Evolutionary and Adaptive Systems

(clever computer programs)

• 00-03 Bioinformatician, UCSD, CFAR• now - PhD student, Bioinformatics Training

Programme

Knowledge Based Systems

• Software systems that contain representations of human knowledge and can thus emulate human behaviour (to some extent).

Knowledge Based Systemsin practice

• 1997 IBM computer program Deep Blue defeats world chess champion

QuickTime™ and aTIFF (Uncompressed) decompressor

are needed to see this picture.

QuickTime™ and aTIFF (Uncompressed) decompressor

are needed to see this picture.

• McManus-Informaticus– Deep Blue for Biomedical Research.

• What are the Biomarkers of allograft rejection likely to be?– Hypothesis generation– Hypothesis validation

QuickTime™ and aTIFF (Uncompressed) decompressor

are needed to see this picture.

BHAG

“Knowledge Representation”

Is hard and takes a lot of time

Neurosurgery?

The iCAPTURer

First Trial at YI Forum

• 2 days to build the YI Ontology

• 68 volunteers

• 665 terms collected

• 326 “is a kind of” relations collected

• 340 “same as” relations collected

• Quality assessment underway

• Manuscript in preparation

Thanks to Dr. McManus

• For hiring Dr. Mark Wilkinson• For suggesting I go to the YI Forum• For introducing me to the term BHAG• For posing in one of my most frequently used slides• And for sending me this in an email

“… thanks especially for pushing boundaries.”