| 2002 | AMIA | A Typology for Modeling Processes in Clinical Guidelines and Protocols. | Samson W. Tu, Peter D. Johnson, Mark A. Musen |
| 2001 | AIME | Interface of Inference Models with Concept and Medical Record Models. | Alan L. Rector, Peter D. Johnson, Samson W. Tu, Chris Wroe, Jeremy Rogers |
| 2001 | AMIA | A virtual medical record for guideline-based decision support. | Peter D. Johnson, Samson W. Tu, Mark A. Musen, Ian N. Purves |
| 2000 | AMIA | Using scenarios in chronic disease management guidelines for primary care. | Peter D. Johnson, Samson W. Tu, Nick Booth, Bob Sugden, Ian N. Purves |
| 1999 | AMIA | A reference terminology for drugs. | W. D. Solomon, Chris Wroe, Alan L. Rector, Jeremy Rogers, J. L. Fistein, Peter D. Johnson |
| 1999 | AMIA | The PRODIGY Knowledge Architecture Requirements for Chronic Disease Management in Primary Care. | Bob Sugden, Ian N. Purves, Nick Booth, Peter D. Johnson, Samson W. Tu |
| 1997 | AIME | A Task-Specific Ontology for the Application and Critiquing of Time-Oriented Clinical Guidelines. | Yuval Shahar, Silvia Miksch, Peter D. Johnson |