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From the iCAPTURer to McManus-Informaticus

Explore the journey of Benjamin Good Wilkinson from iCAPTURE Centre, UBC to being a PhD student in Bioinformatics. Learn about his roles, research in cognitive science, and contributions to bioinformatician at UCSD CFAR. Discover the development of clever computer programs and evolution of knowledge-based systems in practice, including the impact of systems like Deep Blue in biomedical research. Gain insights into hypothesis generation and validation, knowledge representation challenges, and the pioneering YI Forum ontology project. Acknowledge Dr. McManus for mentorship and pushing boundaries in the field.

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From the iCAPTURer to McManus-Informaticus

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  1. From the iCAPTURer to McManus-Informaticus Benjamin Good Wilkinson Laboratory iCAPTURE Centre, UBC

  2. 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

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

  4. Knowledge Based Systemsin practice • 1997 IBM computer program Deep Blue defeats world chess champion

  5. BHAG • McManus-Informaticus • Deep Blue for Biomedical Research. • What are the Biomarkers of allograft rejection likely to be? • Hypothesis generation • Hypothesis validation

  6. “Knowledge Representation” Is hard and takes a lot of time

  7. Neurosurgery?

  8. The iCAPTURer

  9. 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

  10. 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.”

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